# hmmscan :: search sequence(s) against a profile database # HMMER 3.0rc1 (February 2010); http://hmmer.org/ # Copyright (C) 2010 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query sequence file: /Users/dhoen/Work/Data/Arabidopsis/TAIR9/Sequences/whole_chromosomes/translated/chr1.pep # target HMM database: /Volumes/douglas.hoen/Work/Analysis/Domestication/Arabidopsis_v2/signatures/Pfam-A.hmm # output directed to file: chr1-tesigsv2.hmmscan # model-specific thresholding: TC cutoffs # Max sensitivity mode: on [all heuristic filters off] # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Chr1_1 [L=10142557] Description: CHROMOSOME dumped from ADB: Jun/20/09 14:53; last updated: 2009-02-02 Scores for complete sequence (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Model Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 0 3971.3 17.7 2.6e-101 329.5 0.6 19.4 17 RVT_2 Reverse transcriptase (RNA-dependent DNA pol 0 3040.7 23.0 1e-206 678.6 0.1 12.2 10 ATHILA ATHILA ORF-1 family 0 1681.9 79.1 1.9e-46 149.9 0.4 28.0 21 RVT_1 Reverse transcriptase (RNA-dependent DNA pol 0 1446.9 27.4 3.6e-95 309.1 0.2 7.6 5 Transposase_21 Transposase family tnp2 0 1168.4 50.3 1.4e-29 94.4 0.3 21.5 18 rve Integrase core domain 9.1e-300 960.0 69.0 3.1e-20 64.0 0.0 28.8 20 Retrotrans_gag Retrotransposon gag protein 1.5e-180 577.0 31.6 1.6e-29 93.1 1.5 9.5 8 Transposase_23 TNP1/EN/SPM transposase 4.4e-143 456.9 82.8 4.8e-18 56.4 0.1 12.9 11 MuDR MuDR family transposase 3.8e-116 371.4 19.6 1.2e-18 58.9 0.0 13.7 7 MULE MULE transposase domain 7.1e-106 344.1 5.6 2.7e-97 316.0 0.0 3.6 1 Plant_tran Plant transposon protein 9.2e-85 275.4 22.9 5.4e-60 194.4 0.3 6.4 3 Peptidase_C48 Ulp1 protease family, C-terminal catalytic d 1.8e-77 249.8 24.8 4.4e-28 89.8 0.1 10.8 3 Transposase_24 Plant transposase (Ptta/En/Spm family) 2.8e-47 150.1 1.2 5.5e-23 72.3 0.2 3.7 2 hATC hAT family dimerisation domain 5.7e-28 89.4 3.6 4.7e-13 41.1 0.0 6.5 1 RVP_2 Retroviral aspartyl protease 1e-16 53.3 0.0 4.4e-07 22.1 0.0 6.8 1 RnaseH RNase H 1.5e-08 25.3 2.4 0.00016 12.1 0.0 4.9 0 Transposase_mut Transposase, Mutator family Domain annotation for each model (and alignments): >> RVT_2 Reverse transcriptase (RNA-dependent DNA polymerase) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 307.3 0.0 5.3e-95 1.5e-94 1 245 [. 1898330 1898578 .. 1898330 1898579 .. 0.99 2 ! 329.5 0.6 8.9e-102 2.6e-101 1 244 [. 2573551 2573794 .. 2573551 2573796 .. 0.99 3 ! 308.8 0.0 1.8e-95 5.2e-95 1 245 [. 3159685 3159929 .. 3159685 3159930 .. 0.99 4 ! 108.2 0.1 3.4e-34 9.7e-34 1 102 [. 3438684 3438785 .. 3438684 3438791 .. 0.96 5 ! 277.2 0.0 8.1e-86 2.3e-85 2 245 .. 3566643 3566890 .. 3566642 3566891 .. 0.99 6 ! 251.4 0.0 6.2e-78 1.8e-77 13 213 .. 4251164 4251364 .. 4251160 4251373 .. 0.97 7 ! 310.6 0.0 5.1e-96 1.5e-95 1 244 [. 4252791 4253034 .. 4252791 4253036 .. 0.99 8 ! 94.2 0.1 6.1e-30 1.8e-29 6 99 .. 4271560 4271653 .. 4271555 4271653 .. 0.97 9 ! 281.5 0.9 3.9e-87 1.1e-86 2 245 .. 4481233 4481476 .. 4481232 4481477 .. 0.98 10 ! 248.2 0.0 5.9e-77 1.7e-76 1 190 [. 4521040 4521233 .. 4521040 4521237 .. 0.97 11 ! 314.6 0.1 3.2e-97 9.2e-97 1 244 [. 4652456 4652702 .. 4652456 4652704 .. 0.98 12 ! 40.7 0.0 1.3e-13 3.7e-13 2 92 .. 5219607 5219697 .. 5219606 5219701 .. 0.90 13 ! 221.0 0.0 1.2e-68 3.4e-68 2 245 .. 5241015 5241258 .. 5241014 5241259 .. 0.95 14 ! 81.2 0.0 5.6e-26 1.6e-25 2 115 .. 5501957 5502070 .. 5501956 5502080 .. 0.92 15 ! 272.4 0.0 2.3e-84 6.7e-84 30 245 .. 6483057 6483271 .. 6483050 6483272 .. 0.98 16 ! 178.5 0.0 1.2e-55 3.3e-55 81 244 .. 7250563 7250726 .. 7250552 7250728 .. 0.96 17 ! 313.7 0.0 5.9e-97 1.7e-96 2 245 .. 7707124 7707367 .. 7707123 7707368 .. 0.99 Alignments for each domain: == domain 1 score: 307.3 bits; conditional E-value: 5.3e-95 RVT_2 1 nktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngelee 95 n tw +++lp gkk++g+kWv+k+Kln+dg++erykARlVakG+tq+eg+dy +tfspv+kl++++ll+a+aa+k+++l+qlD+++aFLng+l+e Chr1_1 1898330 NGTWVVCSLPVGKKAVGCKWVYKIKLNADGSLERYKARLVAKGYTQTEGLDYVDTFSPVAKLTTVKLLIAVAAAKGWSLSQLDISNAFLNGSLDE 1898424 68********************************************************************************************* PP RVT_2 96 evYvkqpeGfedkkk....enkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelk 186 e+Y++ p+G++ ++ +n vc+LkkslYgLkqa+r+Wy k+se l++lgf++s+ d++lf++k++++ ++vl+YVDD++ia+s +++ e l Chr1_1 1898425 EIYMTLPPGYSPRQGdsfpPNAVCRLKKSLYGLKQASRQWYLKFSESLKALGFTQSSGDHTLFTRKSKNSYMAVLVYVDDIIIASSCDRETELLR 1898519 ***********998889999*************************************************************************** PP RVT_2 187 eeLkkefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 ++L+++ +++dlg+l+yfLglei+r+++gi+++q+ky+ +ll+++++ +k++s+p+e+ Chr1_1 1898520 DALQRSSKLRDLGTLRYFLGLEIARNTDGISICQRKYTLELLAETGLLGCKSSSVPMEP 1898578 *********************************************************97 PP == domain 2 score: 329.5 bits; conditional E-value: 8.9e-102 RVT_2 1 nktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngelee 95 n+twel++lp+g+k+ig+kWv+k K+n++ge+erykARlVakG++q++gidy+e+f+pv++le++rl+++laa++k++++q+D k aFLng++ee Chr1_1 2573551 NDTWELTSLPNGHKAIGVKWVYKAKKNSKGEVERYKARLVAKGYSQRAGIDYDEVFAPVARLETVRLIISLAAQNKWKIHQMDFKLAFLNGDFEE 2573645 79********************************************************************************************* PP RVT_2 96 evYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLk 190 evY++qp+G+ +k++e+kv++Lkk+lYgLkqapraW++++++++++++f k+ ++++l++k ++e+++i +lYVDDl+++g++ ++ ee+k+e++ Chr1_1 2573646 EVYIEQPQGYIVKGEEDKVLRLKKALYGLKQAPRAWNTRIDKYFKEKDFIKCPYEHALYIKIQKEDILIACLYVDDLIFTGNNPSMFEEFKKEMT 2573740 *********************************************************************************************** PP RVT_2 191 kefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstple 244 kefem+d+g ++y+Lg+e+++++++i+++qe y+k++lkkfkm+d++pv tp+e Chr1_1 2573741 KEFEMTDIGLMSYYLGIEVKQEDNRIFITQEGYAKEVLKKFKMDDSNPVCTPME 2573794 ****************************************************97 PP == domain 3 score: 308.8 bits; conditional E-value: 1.8e-95 RVT_2 1 nktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngelee 95 n+t+elv+++++++vi++kW+f+lK+ +g+++rykARlVa+Gf+q++g++y+etfspvvk +irl+l+la++++++++qlDv++aFL+g+l++ Chr1_1 3159685 NNTFELVPPKPNQNVISTKWIFTLKYLPNGTLDRYKARLVARGFRQQYGLHYSETFSPVVKSLTIRLVLQLAVSRSWTIKQLDVNNAFLQGTLTD 3159779 79********************************************************************************************* PP RVT_2 96 evYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLk 190 evYv+qp+Gf d++++++vc+Lkk+lYgLkqapraWy++l++++++lgf++s ad+++fv+ ++ +++++l+YVDD++++gss++l+ ++ ++L+ Chr1_1 3159780 EVYVTQPPGFIDPDRPHHVCRLKKALYGLKQAPRAWYQELRNFVCSLGFTNSLADTSVFVYINDIQIVYCLVYVDDIIVTGSSDALVMAFITALS 3159874 *********************************************************************************************** PP RVT_2 191 kefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 ++f++kd +l yfLg+e +r+++g++l+q+kyv +ll+++km dakpvstp+++ Chr1_1 3159875 RRFSLKDPTDLVYFLGIEATRTSQGLHLMQHKYVYDLLSRMKMLDAKPVSTPMAT 3159929 *****************************************************86 PP == domain 4 score: 108.2 bits; conditional E-value: 3.4e-34 RVT_2 1 nktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftq.kegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngele 94 n+twe velp g+k+iglkWvfklK+n+dg+i++yk+Rl+akG+ q id++e+f+pv+++e+ir+ll+l ++++e + lDvktaFL+gel+ Chr1_1 3438684 NQTWEFVELPVGAKAIGLKWVFKLKRNSDGSINKYKTRLIAKGYVQ*Y-RIDFDEVFAPVARVETIRILLNLEGSNNWENHYLDVKTAFLHGELK 3438777 79******************************************9775.59******************************************** PP RVT_2 95 eevYvkqp 102 e+vYv++ Chr1_1 3438778 ETVYVNTT 3438785 *****875 PP == domain 5 score: 277.2 bits; conditional E-value: 8.1e-86 RVT_2 2 ktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleee 96 +twe++ lp+gkkv+g+kW+f++K +dg++erykA++VakGftqkeg+dy+etfspv+k+ ++++ll+++a+kk+ l+qlD+++ FLng+l+e+ Chr1_1 3566643 NTWEITVLPPGKKVVGCKWIFTVKFYADGTLERYKAKIVAKGFTQKEGLDYNETFSPVAKMVTVKMLLKISASKKWFLNQLDISNSFLNGDLDED 3566737 8********************************************************************************************** PP RVT_2 97 vYvkqpeGfedkkk....enkvckLkkslYgLkqapra.WyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelk 186 +Y++ peG+ ++k +n vc+Lkks+ gLkqa+ W+ k+s+ l +lgf k++ d++lfv+ ++e+i+vl+YVDD++ia++++e ++l+ Chr1_1 3566738 IYMRVPEGYAESKGiilpKNAVCRLKKSICGLKQAS-R*WFLKFSASLRQLGFIKCHGDHTLFVRPYGSEFIAVLVYVDDIMIASTTQEGATQLT 3566831 ************999999****************96.999******************************************************* PP RVT_2 187 eeLkkefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 e+Lk++f +++lg lkyfLglei+r+++gi+++q+ky+ +ll++ +m +kp+s+p+ + Chr1_1 3566832 EALKQSFILRELGPLKYFLGLEIARNDSGISICQRKYALELLTSSGMLGCKPSSVPMIP 3566890 ********************************************************976 PP == domain 6 score: 251.4 bits; conditional E-value: 6.2e-78 RVT_2 13 kkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleeevYvkqpeGfed 107 ++ i ++ vf++K++++g+ieryk+RlVa+Gftq++g dy etf+pv+kl+++r++lala++ + l+q+Dvk+aFL+gele++vY++ p+G+ed Chr1_1 4251164 SRGIMTRRVFTIKYKSNGDIERYKTRLVARGFTQTYGSDYMETFAPVAKLHTVRVVLALATNLSCGLWQMDVKNAFLQGELEDDVYMTPPPGLED 4251258 56688999*************************************************************************************** PP RVT_2 108 kkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLkkefemkdlgelk 202 + +kv++L+k++YgLkq+praWy+kls++l+++gfkkse+d++lf+ ++ +++++vl+YVDDl+i+g++k+ i+++k+ Lk++f++kdlgelk Chr1_1 4251259 TIPCDKVLRLRKAIYGLKQSPRAWYHKLSRTLKDHGFKKSESDHTLFTLQSPQGIVVVLIYVDDLIITGDNKDGIDSTKTFLKSCFDIKDLGELK 4251353 *********************************************************************************************** PP RVT_2 203 yfLgleierke 213 yfLg+e+ r + Chr1_1 4251354 YFLGIEVCRLD 4251364 *******9865 PP == domain 7 score: 310.6 bits; conditional E-value: 5.1e-96 RVT_2 1 nktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngelee 95 n+tw+ +lpkgkk+++++Wvf++K++++g+ieryk+RlVa+Gftq++g dy etf+pv+kl+++r++lala++ ++ l+q+Dvk+aFL+gele+ Chr1_1 4252791 NHTWDEDDLPKGKKTVSSRWVFTIKYKSNGDIERYKTRLVARGFTQTYGSDYMETFAPVAKLHTVRVVLALATNLSWGLWQMDVKNAFLQGELED 4252885 79********************************************************************************************* PP RVT_2 96 evYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLk 190 +vY++ p+G+ed+ +kv++L+k++YgLkq+praWy+kls++l+++gfkkse+d++lf+ ++ +++++vl+YVDDl+i+g++k+ i+++k+ Lk Chr1_1 4252886 DVYMTPPPGLEDTIPCDKVLRLRKAIYGLKQSPRAWYHKLSRTLKDHGFKKSESDHTLFTLQSPQGIVVVLIYVDDLIITGDNKDGIDSTKTFLK 4252980 *********************************************************************************************** PP RVT_2 191 kefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstple 244 ++f++kdlgelkyfLg+e+ r+++g++lsq+ky+ +ll+++++ dakp++tple Chr1_1 4252981 SCFDIKDLGELKYFLGIEVCRSNAGLFLSQRKYTLDLLNETGFMDAKPARTPLE 4253034 ****************************************************97 PP == domain 8 score: 94.2 bits; conditional E-value: 6.1e-30 RVT_2 6 lvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleeevYv 99 +v+ ++ k++g+kWvf +K+ne+ ei+rykARlVa+ f+q+ g+dyeet+s v+++ ++r+l++l+++++l++ +Dv ta+L+g+l++++Y+ Chr1_1 4271560 IVTASESVKPVGYKWVFVRKRNEKDEITRYKARLVAQVFSQRPGVDYEETYSRVMDAITFRYLMSLSVSNNLDMYLMDVVTAYLYGSLDNDIYI 4271653 67888999*************************************************************************************6 PP == domain 9 score: 281.5 bits; conditional E-value: 3.9e-87 RVT_2 2 ktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleee 96 ++w+lv+++ + +v+g+kW+fk+K++e+g+++r++ARlVa+G++q egid++etf+pv++lesirlll +++ k++l q+Dvk+aFLng ++ee Chr1_1 4481233 EVWDLVPRQVHVNVVGTKWIFKNKTDEEGNVTRNRARLVAQGYSQVEGIDFDETFAPVARLESIRLLLGISCLLKIKLFQMDVKSAFLNGVIQEE 4481327 79********************************************************************************************* PP RVT_2 97 vYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlli.agsskelieelkeeLk 190 v+v+q +Gfed++ +++v+kLkk+lYgLkqap+aWye+l+ +l+++ fk+ + dk+lf+ +e++++iv++YVDD+++ ++++l+++++e+++ Chr1_1 4481328 VFVSQLKGFEDSNLPDHVYKLKKALYGLKQAPMAWYEHLTLFLIEKSFKRGSVDKTLFILVDEKDILIVQIYVDDIVF*S-TKQKLVSDFVESMT 4481421 ***************************************************************************97555.56788********* PP RVT_2 191 kefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 kefem+++ge+++fLgl+i++++eg+++sq+ y++ l+++f+m++ak+++tp++a Chr1_1 4481422 KEFEMSMVGEMNHFLGLQIKQTDEGVHISQSMYAQGLIQRFGMQTAKTSKTPMSA 4481476 *****************************************************85 PP == domain 10 score: 248.2 bits; conditional E-value: 5.9e-77 RVT_2 1 nktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngelee 95 n tw +++lp gk+++g+kWv+k+Kln+dg++erykARlVakG+tq+eg+dy +tfspv+kl++++ll+a+aa+k+++l+qlD+++aFLng+l+e Chr1_1 4521040 NGTWVVCSLPVGKEAVGCKWVYKMKLNADGSLERYKARLVAKGYTQTEGLDYVDTFSPVAKLTTVKLLIAVAAAKGWSLSQLDISNAFLNGDLDE 4521134 68********************************************************************************************* PP RVT_2 96 evYvkqpeGfedkkk....enkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelk 186 e+Y++ p+G+++++ +n vc LkkslYgLkqa+r+Wy k+se l++lgf++s++d++lf+++++++ ++vl+YVDD+++a+s +++ e l Chr1_1 4521135 EIYMTLPPGYSSRQGdsfpPNAVCLLKKSLYGLKQASRQWYLKFSESLKALGFTQSSCDHTLFTRNSKNSYMAVLVYVDDIIVASSCDRETELLR 4521229 ***********999889999*******************************************************************99999888 PP RVT_2 187 eeLk 190 ++L+ Chr1_1 4521230 NALS 4521233 8876 PP == domain 11 score: 314.6 bits; conditional E-value: 3.2e-97 RVT_2 1 nktwelvelpkgkkviglkWvfklKlnedg.eierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngele 94 n tw+lv++p+++k+ig++W+fklK g e +r+kARlVakG+tq+eg+dy+e+f+pvvk++sir+l+++++ +++eleq+DvktaFL+g+le Chr1_1 4652456 NGTWDLVDKPTNRKIIGCRWLFKLKSGIPGvEPVRFKARLVAKGYTQREGVDYQEIFAPVVKHTSIRVLMSVVVDQDMELEQMDVKTAFLHGDLE 4652550 68****************************999************************************************************** PP RVT_2 95 eevYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeL 189 ee+Y++qpeGf ++k+++kvc LkkslYgLkq+pr+W++++ +++++++f +s++d c++vk+ e++++++llYVDD+liag+sk++++ +ke+L Chr1_1 4652551 EELYMEQPEGFITDKTKDKVCLLKKSLYGLKQSPRQWNKRFGRFMMEQKFIRSAHDACVYVKQVEQGFVYLLLYVDDMLIAGKSKAEVNMIKEQL 4652645 *********************************************************************************************** PP RVT_2 190 kkefemkdlgelkyfLgleier..keegillsqekyvkkllkkfkmedakpvstple 244 + efemkd+g ++++Lg +i+r k++ + lsq y++k++++f++++a+ v+tp+ Chr1_1 4652646 SVEFEMKDMGPASRILGKDITRdrKKGILRLSQAPYIRKIVQRFNLDEARVVRTPIG 4652702 ********************9976677789*************************86 PP == domain 12 score: 40.7 bits; conditional E-value: 1.3e-13 RVT_2 2 ktwelvelpkgkkviglkWvfklKlnedgeierykARlVa..kGftqkeg.idyeetfspvvklesirlllalaaekkleleqlDvktaFLnge 92 +t+e+++lp+g+k++g+kW+f++K++ + +Rl k f +k+ i +t+spv++l+ ir+l+++a+ ++le++q+DvktaFLng Chr1_1 5219607 HTYEIADLPQGSKPLGSKWIFTIKRKRM--VILIGTRLGL*yKDFDKKKV*ISL-NTYSPVTRLTLIRMLISIATLRDLEIHQMDVKTAFLNGV 5219697 8***********************8766..788899998454999998877775.8************************************96 PP == domain 13 score: 221.0 bits; conditional E-value: 1.2e-68 RVT_2 2 ktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGf.tqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngelee 95 +t+e+++lp+g+k++g+kW+f++K++++g+i+ryk RlV++Gf + keg+d+ +t+spv++++sir+l+ +aa ++le++q+DvktaFLng+lee Chr1_1 5241015 HTHEIADLPQGSKPLGSKWIFTIKRKTNGDIDRYKGRLVVQGF*Q-KEGLDFFDTYSPVTRITSIRMLVGIAALRDLEIHQMDVKTAFLNGDLEE 5241108 799***************************************998.58*********************************************** PP RVT_2 96 evYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelie.elkeeL 189 ++Y+kq eGf+ +++e+kvckL ks YgLk ap++W+ek+++v++ +gf+ +e+dkc+++k + ++ i+++lYVD + ++++ + ++ Chr1_1 5241109 KIYMKQHEGFVIPGQEHKVCKLVKSRYGLKPAPKQWHEKFDSVMMYNGFTINECDKCIYFKFTPTGYILLCLYVDNMRSSWGTTHI-S*IKRKTC 5241202 ****************************************************************************9877666664.44345788 PP RVT_2 190 kkefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 +k f + g+ + g++i r +eg++lsq++y++k+l++fk + +++tp+++ Chr1_1 5241203 SKIFLNERHGSSGCYFGIKIIRIDEGLTLSQTHYAEKILDRFKHYSNGTAKTPVDP 5241258 999*************************************************9986 PP == domain 14 score: 81.2 bits; conditional E-value: 5.6e-26 RVT_2 2 ktwelvelpkgkkviglkWvfklKlnedgeier.ykARlVakGftq.kegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngele 94 k+w+lv++p++ +++ + W+f++K+++dg + +kARlVa+ + ++g+d++etfspvvk ++ir +l++ ++ +l ++qlDvk+a L+g+l+ Chr1_1 5501957 KSWNLVPRPPQVNIVRSMWLFRHKYDADG-VLS*HKARLVAN-CKS*EHGVDFTETFSPVVKPATIRDVLDVGVALNLPIQQLDVKNALLQGDLN 5502049 78**************************8.56788******8.466889********************************************** PP RVT_2 95 eevYvkqpeGfedkkkenkvc 115 e+vY++qp+ f++k+ +n+ Chr1_1 5502050 ETVYMHQPPRFVNKEFPNHQP 5502070 **************9887654 PP == domain 15 score: 272.4 bits; conditional E-value: 2.3e-84 RVT_2 30 geierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleeevYvkqpeGfedkkkenkvckLkkslYgL 124 ++eryk+RlVa G++qkegid++etf+pv+k++s+r++l+++a++++e++q+Dv++aFL+g+leeevY+k p+G+ + ++ kvc+L+kslYgL Chr1_1 6483057 RTVERYKTRLVALGNRQKEGIDFDETFAPVAKMTSVRIFLSIVAARNWEVHQMDVHNAFLHGDLEEEVYMKLPPGYFAQ-HKGKVCRLRKSLYGL 6483150 689*************************************************************************999.59************* PP RVT_2 125 kqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLkkefemkdlgelkyfLgleierkeegills 219 kqapr+W++k+ ++l+++gf++s +d +lf +++ +++vl+YVDDl+++g+s+++i+e+k++L+++f+mkdlg lkyfLg+e++r+ +gi+l+ Chr1_1 6483151 KQAPRCWFAKFATALKNYGFQQSYSDYSLFSFNRDGVSLYVLVYVDDLIVTGNSTTAISEFKQYLDSCFHMKDLGLLKYFLGIEVARSPDGIYLC 6483245 *********************************************************************************************** PP RVT_2 220 qekyvkkllkkfkmedakpvstplea 245 q+kyv ++l+++ + a+p+ p+e+ Chr1_1 6483246 QRKYVLDILQDTFLLGAQPSGFPIEQ 6483271 ********************999987 PP == domain 16 score: 178.5 bits; conditional E-value: 1.2e-55 RVT_2 81 qlDvktaFLngeleeevYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDllia 175 Dvk+aFL+g+l+e+vY++qp Gf+d+ k+++vc L+k+lYgLkqapraW++k+s++l+++gf s++d++lfv+ ++++li++llYVDD++i+ Chr1_1 7250563 TEDVKNAFLHGDLKETVYMAQPAGFVDPLKPDHVCLLHKALYGLKQAPRAWFDKFSNFLMEFGFICSKSDPSLFVYAHNNNLILLLLYVDDMVIT 7250657 56********************************************************************************************* PP RVT_2 176 gsskelieelkeeLkkef.emkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstple 244 g+s++++++l ++L+kef +d+g+l+yfLg++++++++g+++sq+ky+++ll ++m d++p tpl Chr1_1 7250658 GNSSQTLTRLLSTLNKEF*M-TDMGQLHYFLGIQVQQHQHGLFMSQQKYAEDLLVAASMADCTPLPTPLP 7250726 ***************98665.79********************************************986 PP == domain 17 score: 313.7 bits; conditional E-value: 5.9e-97 RVT_2 2 ktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleee 96 +tw+lv+ +++++++++kWvfk+Kl+ dg+i++ kARlVakGf q+eg+dy etfspvv++++irl+l++a+++++ l+qlDv++aFL+gel+e Chr1_1 7707124 NTWSLVPATEDMNILTSKWVFKTKLKPDGTIDKLKARLVAKGFDQEEGVDYLETFSPVVRTATIRLVLDTATANEWPLKQLDVSNAFLHGELQEP 7707218 79********************************************************************************************* PP RVT_2 97 vYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLkk 191 v++ qp+Gf+d++k+n+vc+L+k+lYgLkqapraW++++s++ll++gf+ s++d++lfv +++ +++i+llYVDD+l++gs++ l+++l ++L++ Chr1_1 7707219 VFMFQPSGFVDPNKPNHVCRLTKALYGLKQAPRAWFDTFSNFLLDFGFECSTSDPSLFVCHQNGQSLILLLYVDDILLTGSDQLLMDKLLQALNN 7707313 *********************************************************************************************** PP RVT_2 192 efemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 +f+mkdlg +yfLg+eie+ ++g++l+q++y++++l++++m++++p+ tpl + Chr1_1 7707314 RFSMKDLGPPRYFLGIEIESYNNGLFLHQHAYASDILHQAGMTECNPMPTPLPQ 7707367 ***************************************************976 PP >> ATHILA ATHILA ORF-1 family # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 138.8 0.2 2e-43 5.8e-43 336 458 .] 4591360 4591482 .. 4591356 4591482 .. 0.98 2 ! 286.6 0.0 2.9e-88 8.4e-88 236 449 .. 4751171 4751385 .. 4751169 4751393 .. 0.99 3 ! 51.4 0.0 6.8e-17 2e-16 100 374 .. 4774860 4775120 .. 4774857 4775139 .. 0.81 4 ! 584.1 0.0 1.8e-178 5e-178 61 458 .] 4778796 4779194 .. 4778795 4779194 .. 0.99 5 ! 167.9 0.0 3.1e-52 8.9e-52 277 457 .. 4782032 4782225 .. 4782023 4782226 .. 0.94 6 ! 353.3 0.1 1.7e-108 5e-108 1 456 [. 4805365 4805809 .. 4805365 4805811 .. 0.94 7 ! 302.8 0.0 3.8e-93 1.1e-92 147 348 .. 4831507 4831709 .. 4831504 4831712 .. 0.99 8 ! 315.5 0.0 5e-97 1.4e-96 200 457 .. 4951347 4951601 .. 4951344 4951602 .. 0.99 9 ! 162.5 0.2 1.3e-50 3.8e-50 2 170 .. 4960086 4960260 .. 4960085 4960262 .. 0.90 10 ! 678.6 0.1 3.6e-207 1e-206 2 458 .] 5138699 5139148 .. 5138698 5139148 .. 0.99 Alignments for each domain: == domain 1 score: 138.8 bits; conditional E-value: 2e-43 ATHILA 336 sellLpskevTtieekenIdfkPskeil...sappedeaelteeaeeedvdeededeeaelekfdtsqyhFeehappareskslsevhkklsklq 427 +++lLp+ ++T+i e++nIdfkP+ + l ++pp++e+++te+a++edvde+d+++eae fdts+yhF+eh+ pareskslse+h+++sklq Chr1_1 4591360 ANILLPCIDATRILEGRNIDFKPALKDLyfeGSPPTEEISHTEGATTEDVDETDDIDEAE---FDTSMYHFSEHISPARESKSLSEAHRNNSKLQ 4591451 89**********************************************************...******************************** PP ATHILA 428 kwckkqdkllkkllkkikklkkklkssssqt 458 kwckkqd ll+k+l++ik+lk+k+++sss+t Chr1_1 4591452 KWCKKQDNLLAKCLRAIKFLKDKISCSSSTT 4591482 ****************************986 PP == domain 2 score: 286.6 bits; conditional E-value: 2.9e-88 ATHILA 236 tkdgrklkgdlndtslsvvLldhLlsYreyaatikkk.lrGslcvGGvvTpiliavgvplsskglepraidldylkrkeflelkasddayrykfe 329 tk++++l+gd n++++++ L++hL++Yr++a t+ kk +rG+lcvGGvvTpil a+gvpl+++gl+pr++dld+ +r+efle ++++d+ ry+fe Chr1_1 4751171 TKGKNVLRGDINNAPPVMPLVIHLCGYRKWALTNGKKkVRGALCVGGVVTPILEACGVPLKEPGLAPRMMDLDHWRRCEFLEYDMVGDFQRYRFE 4751265 9**********************************999********************************************************* PP ATHILA 330 hselkksellLpskevTtieekenIdfkPskeil...sappedeaelteeaeeedvdeededeeaelekfdtsqyhFeehappareskslsevhk 421 hs+++ +++lLp+ ++T+i e++nIdfkP+ e l + pp++e+++te+ ++edvde+d+++eae +dts+yhF+e++ppareskslse+h+ Chr1_1 4751266 HSSIRIANILLPCIDATRILEGRNIDFKPALEDLyfeGCPPTEEISHTEGVTTEDVDETDKIDEAE---IDTSMYHFSENIPPARESKSLSEAHR 4751357 ******************************************************************...************************** PP ATHILA 422 klsklqkwckkqdkllkkllkkikklkk 449 ++ k qkwckkqdkll+k+l++ik+lk+ Chr1_1 4751358 NNNKFQKWCKKQDKLLAKCLRAIKFLKD 4751385 *************************985 PP == domain 3 score: 51.4 bits; conditional E-value: 6.8e-17 ATHILA 100 ykeetveflstlelelyqesedrekeeeglGyitFkvkgveyslsikqleeifgFpsk.kgik..pkfdkeeLksLwatiasklplnsarsKsnq 191 y e +f++++ + y + dr+++ + G + F+v+gv+ysl+ ++l+ i+gF++ +g++ +f ++ + +w + ++ ++ s Chr1_1 4774860 YPELVRQFMASVRVY-Y--VNDRKLNVQE-GALIFFVRGVRYSLPLRELCDIYGFDNDlTGVAlpGQF--KDAQIFWSRFSNGIYDSKDAVHS-E 4774947 666667899999995.4..6666677666.9************************9863677743566..89999********7777766666.9 PP ATHILA 192 irspvirylqrsiAnvlfsrestgtvtnselelldqaLkeiLrrtkdgrklkgdlndtslsvvLldhLlsYreyaatikkklrGsl.cvGGvvTp 285 ir+ v+ryl r+i ++lf + + g + sel +l + + + +++++ +++ + v+++hL+s + t + k l vG ++Tp Chr1_1 4774948 IRHLVLRYLVRLISSTLFCKMEPGKMRLSELLVLYHVVHDFFPDSLGFEEVDR---NVNFGAVFAHHLVSLKTKPFTGRGK---KLeRVGSLLTP 4775036 ******************************************99988888875...68899************99988766...45259999*** PP ATHILA 286 iliavgvplsskglepraidldylkrkeflelka.sddayrykfehse.lkksellLpskevTtie.ekenIdfkPskeilsappedeaelt 374 i+ + ++ ++++ ++ +d ++l++++ +d + + f +++ ++ + L +++ T+i+ e+e+++f+P+ + + a + + Chr1_1 4775037 IFEHFRISFEGEEVNTTRFTMD----ESYLKKSH*LKDNLLWCFRDET*DH--MIQLSCTALTKITcEHEELSFCPDPSLMHA--APRTRRH 4775120 *****************99998....4677777787999999**9987776..57899*******857899******998833..3333333 PP == domain 4 score: 584.1 bits; conditional E-value: 1.8e-178 ATHILA 61 egTryphketlaeLglledvdylfkkakletfmsypyeaykeetveflstlelelyqesedrekeeeglGyitFkvkgveyslsikqleeifgFp 155 +gTryp++etla+Lglledv++lf+k++let+msypy aykeet+eflstl++e+y++++d e++++glG++tF v++++y+lsik+lee+fgFp Chr1_1 4778796 LGTRYPCYETLAQLGLLEDVQHLFEKCHLETLMSYPYAAYKEETIEFLSTLQVEMYEGLTDFELDTMGLGFLTFLVNEQRYQLSIKKLEELFGFP 4778890 69********************************************************************************************* PP ATHILA 156 skkgikpkfdkeeLksLwatiasklplnsarsKsnqirspviryl.qrsiAnvlfsrestgtvtnselelldqaLkeiLrrtkdgrklkgdlndt 249 s+kg kp+fd+eeLk+Lwat +++lplnsarsKsnqirspvi+y+ + + v++srestgtv+n+++e++++ L++iLrrtk++++l+gdln++ Chr1_1 4778891 SGKGNKPRFDREELKDLWATKGNNLPLNSARSKSNQIRSPVICYF*RS-VVTVFYSRESTGTVSNTDMEMINYVLTGILRRTKGKNVLRGDLNNA 4778984 ********************************************9985.668******************************************* PP ATHILA 250 slsvvLldhLlsYreyaatikkk.lrGslcvGGvvTpiliavgvplsskglepraidldylkrkeflelkasddayrykfehselkksellLpsk 343 ++++ Ll+hL++Yr++a + kk +rG+lcvGGvvTpil a+gvpl+++gl+pr++dld+l r+efle++++dd++ry+fehs+++ +++lLp+ Chr1_1 4778985 PPVMPLLIHLCGYRKWALRNGKKkVRGALCVGGVVTPILEACGVPLKEPGLAPRMMDLDHLCRCEFLEFDMADDFHRYRFEHSSIRIANILLPCI 4779079 ********************9999*********************************************************************** PP ATHILA 344 evTtieekenIdfkPskeil...sappedeaelteeaeeedvdeededeeaelekfdtsqyhFeehappareskslsevhkklsklqkwckkqdk 435 ++T+i +++nIdfkP+ e l ++pp+ e+++te+a++edvde+d+++eae fdts+yhF+ h+ paresksl e+hk++sklqkwckkqdk Chr1_1 4779080 DATRILKGRNIDFKPALEDLyfeGSPPTVEISHTEGATTEDVDESDDIDEAE---FDTSMYHFSVHISPARESKSLREAHKNNSKLQKWCKKQDK 4779171 ****************************************************...**************************************** PP ATHILA 436 llkkllkkikklkkklkssssqt 458 ll+k+l++ik+lk+k+++sss+t Chr1_1 4779172 LLAKFLRAIKFLKDKISCSSSTT 4779194 ********************986 PP == domain 5 score: 167.9 bits; conditional E-value: 3.1e-52 ATHILA 277 lcvGGvvTpiliavgvplsskglepraidldylkrkeflelkasddayrykfehselkksellLpskevTtieekenIdfkPskeil........ 363 cvGG++Tpil avg+++ + ++ p++idldylk k+fle+++++d+y +kf+h el+ s l Lp++++T++++++nI+f+Ps ++l Chr1_1 4782032 FCVGGLLTPILEAVGMEFGTSNVFPKFIDLDYLKGKDFLEKTTPADRYLFKFNHLELGPSLLPLPCENQTSVKTRRNINFMPSPSALniniggar 4782126 7********************************************************************************************** PP ATHILA 364 ......sappedeaelte.eaeeedvdeededeeaelekfdtsqyhFeehappareskslsevhkklsklqkwckkqdkllkkllkkikklkkkl 451 s +++e ++ +++ee++++e+++++ e+ +++++q+h+ee + ++ +++ ++vhkkl++l++++++++k+lk+++k+++++kk+l Chr1_1 4782127 edepiySPTDYEQHEYFT*ADYEEQIEFEQHIDQPEHGTSEQEQAHYEEGV--DQRGDEFAKVHKKLGVLEELGNLHSKTLKGFKKNMRTMKKSL 4782219 999875333444455555778999**************************9..****************************************** PP ATHILA 452 kssssq 457 ks+++q Chr1_1 4782220 KSMAAQ 4782225 ***987 PP == domain 6 score: 353.3 bits; conditional E-value: 1.7e-108 ATHILA 1 trreeiargkrvveseeevieEdvev..eyepepvrrrtkelkkkdeltpeeYykllkelefegTryphketlaeLglledvdylfkkakletfm 93 +rr eiargkr++ +e+ +++Ed+ +y e + r+tk l+kk +l + Yy ll ef+gTryp+++t++e g+ edv+ylf+k l +m Chr1_1 4805365 RRRVEIARGKRAMAEERSLVDEDLGGdeDYITEITPRATKPLMKKTKLLLDGYYELLAAHEFHGTRYPNSQTMNEFGITEDVEYLFEKSGLLGLM 4805459 5899********************876799***************************************************************** PP ATHILA 94 sypyeaykeetveflstlelelyqesedrekeeeglGyitFkvkgveyslsikqleeifgFpskkgikpkfdkeeLksLwatiasklplnsarsK 188 p +ayk e ++fl++le glGyitF+v+ ++y+l ik+le + gFp ++ +k+kf+k+eL +Lw+ti+ + ++s+r+K Chr1_1 4805460 TNPQSAYKVEALQFLASLE---------------GLGYITFTVYAKDYVLAIKTLEDMLGFPRGTYVKHKFKKKELSDLWVTIGDDVQFSSSRAK 4805539 ****************986...............69*********************************************************** PP ATHILA 189 snqirspvirylqrsiAnvlfsrestgtvtnselelldqaLkeiLrrtkdgrklkg..dlndtslsvvLldhLls....Yreyaatikkk.lrGs 276 sn ir+p iry+q+++Anvl++re+tg ++n+e+elld aLk +L +tk++ +g ++ ++ ++ +++ ++e + ++ Chr1_1 4805540 SNAIRNPCIRYFQKALANVLYAREKTGPINNGEIELLDVALKDLLVYTKNKVY-EG*hKR------CLTINAFIEstl*FQE---MGTSE*AQEN 4805624 *************************************************9854.434233......3333444442556666...3444566666 PP ATHILA 277 lcvGGvvTpiliavgvplsskglepraidldylkrkeflelkasddayrykfehselkksellLpskevTtieekenIdfkPskeil....sapp 367 v+Tpil+a+gvpl+s+ ++ r+id+ +l+ f+e++ + ++ kf+h++ ++llLps+e Tti + f+P++e+l sapp Chr1_1 4805625 HFYRRVITPILMACGVPLQSTPFTTRWIDIPHLRWALFIEHQSHEGMHSLKFQHRTEMDATLLLPSQELTTIMVRGTSIFNPPNEELffmdSAPP 4805719 66688****************************************************************************************** PP ATHILA 368 edeaelteeaeeedvdeed.edeeaelekfdtsqyhFeehappareskslsevhkklsklqkwckkqdkllkkllkkikklkkklkssss 456 + ea ++ee ++++ e+ e ee+++e+++ s++hFee++pp r sksl+ +hk+ + + w k+qdk+l+k k+i ++ l++sss Chr1_1 4805720 TREARHNEERAKNEERAEN*EVEEMDWENYNASRFHFEEYQPPPRVSKSLNVAHKNIGSMSAWNKFQDKMLEKYGKAIAAIQAVLSCSSS 4805809 ************999999999*******************************************************************98 PP == domain 7 score: 302.8 bits; conditional E-value: 3.8e-93 ATHILA 147 qleeifgFpskkgikpkfdkeeLksLwatiasklplnsarsKsnqirspvirylqrsiAnvlfsrestgtvtnselelldqaLkeiLrrtkdgrk 241 +l +i++Fps++g+kpk+d+eeLk+Lw+ti+s++plns+ sKsnqirspviry+qrsiAnvl+sre+tgtvtn ++e++++aLk++Lr+tk+g++ Chr1_1 4831507 ALGRIVWFPSGTGTKPKYDREELKDLWITIGSSVPLNSSMSKSNQIRSPVIRYFQRSIANVLYSREITGTVTNFDMEMIAMALKGTLRQTKNGMS 4831601 6899******************************************************************************************* PP ATHILA 242 lkgdlndtslsvvLldhLlsYreyaatikkk.lrGslcvGGvvTpiliavgvplsskglepraidldylkrkeflelkasddayrykfehselkk 335 l+g+ ndt+lsv+Ll+hL++Y+++a+++++k +rG+lc+G vvTpilia+gvp++s+gle ra+d++ l++ efle++++dd++r++fehs++++ Chr1_1 4831602 LQGEINDTPLSVLLLIHLCGYKSWAVSNNHKrARGALCIGAVVTPILIACGVPITSDGLELRAMDIEQLRHFEFLEFAMVDDLHRFRFEHSTDRR 4831696 *********************************************************************************************** PP ATHILA 336 sellLpskevTti 348 +++lLps+evT i Chr1_1 4831697 ASILLPSPEVTLI 4831709 ***********98 PP == domain 8 score: 315.5 bits; conditional E-value: 5e-97 ATHILA 200 lqrsiAnvlfsrestgtvtnselelldqaLkeiLrrtkdgrklkgdlndtslsvvLldhLlsYreyaatikkk.lrGslcvGGvvTpiliavgvp 293 +qr++Anv ++re+++tvtn+++e+ld+aL ++Lr+tkdg+ +kgd+ndt++s++Ll+hL+sYr++++ + kk ++ +lc+GGvvTpil ++vp Chr1_1 4951347 FQRAMANVPYAREISATVTNQDMETLDLALLSFLRYTKDGKTMKGDTNDTPPSMYLLNHLCSYRGWTMANGKKnAKAALCIGGVVTPILLSCNVP 4951441 8********************************************************************************************** PP ATHILA 294 lsskglepraidldylkrkeflelkasddayrykfehselkksellLpskevTtieekenIdfkPskeilsappedeaelteeaeeedvdeeded 388 l ++ ++pr+id+ +lk +++e+k d++y +kf+h++++++++lLp +e+Tti+ ++nIdf+P++ei + + + + ++e+v++++++ Chr1_1 4951442 LRPDPIQPRWIDIAHLKLAHVIEHKVYDERYAFKFDHPSTGEATILLPFSEMTTITGRDNIDFSPPQEII----HAVVGRSASRNAEEVEGQSDN 4951532 **********************************************************************....9999999999*********** PP ATHILA 389 eeaelekfdtsqyhFeehappareskslsevhkklsklqkwckkqdkllkkllkkikklkkklkssssq 457 ee+++e++d s+yhFeeh+pp+resksl e+h+kls++q+wck+qdk+++k++k+i++++k+++ ++s+ Chr1_1 4951533 EETNWENYDKSRYHFEEHKPPSRESKSLDEAHQKLSLTQRWCKFQDKIIHKCVKAIDNMHKAISFTTST 4951601 ***************************************************************998876 PP == domain 9 score: 162.5 bits; conditional E-value: 1.3e-50 ATHILA 2 rreeiargkrvveseeevieEdveveyepepvrrrtk....elkkkdeltpee.YykllkelefegTryphketlaeLglledvdylfkkaklet 91 ++++i gk+ v ++ e+++Ed e e + + +t+ + ++ ++ + Yykllk++ef+gT+yph+et+++Lg+++dvdy+fk+++l++ Chr1_1 4960086 NKADITQGKKPVGRRLELVDEDSEEEMASSKEDDQTEkggdDDLESEKCATRN*YYKLLKRNEFLGTQYPHPETMERLGIYDDVDYMFKQCSLNI 4960180 6899********************97666555444441110455556677777****************************************** PP ATHILA 92 fmsypyeaykeetveflstlelelyqesedrekeeeg.lGyitFkvkgveyslsikqleeifgFpskkgikpkfdkeeLk 170 +m++p+e+y+eet++fls+++l ly+e ed+e++ +g lGy++F+v++vey+l+i++l+ ++gFp++k+++++fdk+eL Chr1_1 4960181 HMFRPMEGYEEETIQFLSSVQLLLYGEPEDDEIRPDGsLGYLEFCVYDVEYRLPIEHLDLMYGFPNGKDTSHRFDKRELS 4960260 ******************************************************************************97 PP == domain 10 score: 678.6 bits; conditional E-value: 3.6e-207 ATHILA 2 rreeiargkrvveseeevieEdveveyepepvrrrtkelkkkdeltpeeYykllkelefegTryphketlaeLglledvdylfkkakletfmsyp 96 +r+e argkr+++s++e+i+Ed++veyepe+++r+tk+l+++de+t+eeY++l++ ++f+gTryp+++tla+Lglledv++lf+k++let+msyp Chr1_1 5138699 KRAESARGKRAMTSRYEMIDEDIDVEYEPESWHRETKLLNRPDEVTVEEYIRLFELNDFWGTRYPCYQTLAQLGLLEDVQHLFEKCHLETLMSYP 5138793 89********************************************************************************************* PP ATHILA 97 yeaykeetveflstlelelyqesedrekeeeglGyitFkvkgveyslsikqleeifgFpskkgikpkfdkeeLksLwatiasklplnsarsKsnq 191 y+ayk+et+eflstl++e+yq+++++e+e+eglG++tF+v++++y+lsik l+ +fgFp++kg+kpkf++eeLk+Lw+ti++ + lnsarsKsnq Chr1_1 5138794 YVAYKKETIEFLSTLQVEMYQGLTADELESEGLGFLTFSVNEQRYQLSIKSLKGLFGFPNGKGTKPKFEREELKNLWLTIGNDIALNSARSKSNQ 5138888 *********************************************************************************************** PP ATHILA 192 irspvirylqrsiAnvlfsrestgtvtnselelldqaLkeiLrrtkdgrklkgdlndtslsvvLldhLlsYreyaatikkk.lrGslcvGGvvTp 285 irspv Anvl+srestg v+n+++e++d+aLk+iLrrtk++++lkgdlnd++ +++Ll+hL++Yr++a+t++kk +rG+lcvGGvvTp Chr1_1 5138889 IRSPV--------ANVLYSRESTGIVSNTDMEMIDSALKGILRRTKGKKVLKGDLNDAPAVMLLLIHLCGYRKWAHTNEKKrVRGALCVGGVVTP 5138975 ****6........********************************************************************************** PP ATHILA 286 iliavgvplsskglepraidldylkrkeflelkasddayrykfehselkksellLpskevTtieekenIdfkPskeil...sappedeaelteea 377 ilia+gvpl s+g++pr++dld+l+r+efle+++++d+yrykfehs ++++++lLp++e+ ti ++enIdf+P++++l sapp+d++ t+ea Chr1_1 5138976 ILIACGVPLMSPGFDPRMMDLDHLRRCEFLEHDMVGDFYRYKFEHSLTRTANILLPCTEAITILQGENIDFNPARDYLyfeSAPPTDDNGPTKEA 5139070 *********************************************************************************************** PP ATHILA 378 eeedvdeededeeaelekfdtsqyhFeehappareskslsevhkklsklqkwckkqdkllkkllkkikklkkklkssssqt 458 +e+++ e+ded+++e +dts+yhF+e++ppareskslse+h+++sklq+wckkqd+ll k++k+ik+l++kl++sss+t Chr1_1 5139071 TEDEIAETDEDRKEE---YDTSMYHFSENVPPARESKSLSEAHRNNSKLQRWCKKQDRLLIKCFKAIKFLTDKLSCSSSTT 5139148 ***************...************************************************************986 PP >> RVT_1 Reverse transcriptase (RNA-dependent DNA polymerase) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 135.0 0.0 2.4e-42 6.8e-42 2 213 .. 1110363 1110620 .. 1110362 1110621 .. 0.94 2 ! 62.7 0.0 3.1e-20 8.9e-20 1 214 [] 2356216 2356376 .. 2356216 2356376 .. 0.97 3 ! 149.9 0.4 6.5e-47 1.9e-46 7 213 .. 2830213 2830461 .. 2830206 2830462 .. 0.97 4 ! 77.2 0.2 1.1e-24 3.2e-24 1 198 [. 3425542 3425769 .. 3425542 3425770 .. 0.92 5 ! 45.2 0.1 7.2e-15 2.1e-14 1 193 [. 4334178 4334319 .. 4334178 4334358 .. 0.90 6 ! 44.9 1.0 8.9e-15 2.6e-14 1 214 [] 4445631 4445791 .. 4445631 4445791 .. 0.94 7 ! 98.2 0.0 4.4e-31 1.3e-30 23 202 .. 4539999 4540205 .. 4539998 4540235 .. 0.93 8 ! 62.4 0.0 3.8e-20 1.1e-19 1 213 [. 4554281 4554440 .. 4554281 4554441 .. 0.95 9 ! 142.5 0.1 1.2e-44 3.4e-44 3 203 .. 4564046 4564278 .. 4564040 4564301 .. 0.92 10 ! 69.3 0.1 3e-22 8.6e-22 1 213 [. 4606969 4607128 .. 4606969 4607129 .. 0.96 11 ! 71.1 0.2 8.3e-23 2.4e-22 1 214 [] 4673871 4674031 .. 4673871 4674031 .. 0.95 12 ! 29.7 0.0 4e-10 1.2e-09 85 211 .. 4684673 4684833 .. 4684670 4684835 .. 0.83 13 ! 41.6 0.0 8.8e-14 2.5e-13 4 213 .. 4695872 4696029 .. 4695860 4696030 .. 0.91 14 ! 55.4 0.1 5.5e-18 1.6e-17 1 212 [. 5054810 5054968 .. 5054810 5054970 .. 0.96 15 ! 28.6 0.0 8.4e-10 2.4e-09 1 183 [. 5100643 5100774 .. 5100643 5100781 .. 0.93 16 ! 28.6 0.0 8.4e-10 2.4e-09 1 183 [. 5133337 5133468 .. 5133337 5133475 .. 0.93 17 ! 40.7 0.0 1.7e-13 4.8e-13 2 202 .. 5165619 5165769 .. 5165614 5165791 .. 0.93 18 ! 140.0 0.0 7e-44 2e-43 1 211 [. 5209292 5209552 .. 5209292 5209554 .. 0.90 19 ! 63.3 0.0 2.1e-20 6e-20 24 202 .. 5414007 5414211 .. 5414005 5414241 .. 0.89 20 ! 136.5 0.0 8.2e-43 2.4e-42 4 213 .. 5438073 5438328 .. 5438070 5438329 .. 0.90 21 ! 141.4 0.1 2.6e-44 7.5e-44 1 201 [. 5441027 5441257 .. 5441027 5441276 .. 0.95 Alignments for each domain: == domain 1 score: 135.0 bits; conditional E-value: 2.4e-42 RVT_1 2 pkkg....tgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslht........ikalnklsgs.kwllklDlkkaFdsiphdpl 83 pk + +++Rp++++++++k++ +++++rL+ ++++ +++++ gf +gr l + +++ + +++ + +l++D++ka+d++++++l Chr1_1 1110363 PKVTgadrLTQFRPVACCTTIYKVITRIISRRLKLFIDQAVQANQVGFIKGRLLCEnvllaselVDNFEADGETtRGCLQVDISKAYDNVNWEFL 1110457 5656666789******************************************************44444445555******************** PP RVT_1 84 lkkltafglpqrfirlikkllstrsravylegek.geiyesrglpqGsvlSPllfnlflheldkflrkaf............kprllyvrYaDDi 165 +++l+a+ lp fi++i+ ++s++s+++ ++ge g++++++g++qG+++S lf+l+++ l+k l + p ++++++aDD+ Chr1_1 1110458 INILKALDLPLVFIHWIWVCISSASYSIAFNGELiGFFQGKKGIRQGDPMSSHLFVLVMDVLSKSLDLGAlnglfnlhpnclAPIITHLSFADDV 1110552 *********************************99********************************999************************* PP RVT_1 166 ligaks.keeleeileeieeflkelglelnpeKtkith...................ksdevkflGyv 213 l+++++ + + il+++ +f + +gl +n eKt+++ s +v++lG++ Chr1_1 1110553 LVFSDGaASSIAGILTILDDFRQGSGLGINREKTELLLdggnfarnrsladnlgithGSLPVRYLGVP 1110620 ******9999*********************************************99999*****997 PP == domain 2 score: 62.7 bits; conditional E-value: 3.1e-20 RVT_1 1 ipkkgtgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqr 95 ++kk+ gk+R vd+ l+k++ k +s+p ++++++ ++ +sg+ l+++D +++++i +++ ++ t+f ++ Chr1_1 2356216 VKKKN-GKWRVC----VDYTDLNKACPK---------DSYPLPHIDRL--------VEATSGNGLLSFMDAFSGYNQILMHKDDQEKTSFVTD-- 2356286 68999.*****5....5***********.........***********........888**********************************.. PP RVT_1 96 firlikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflkelg 190 +++y+++++ +G++++ + +++f+++++ + + ++ +Y+DD+l+ + ++e++ e+l+++ ++l+ +g Chr1_1 2356287 ----------------------RGTYCYKVMSFGLKNAGATYQRFVNKMLADQIGR-----TVEVYIDDMLVKSLKPEDHVEHLSKCFDVLNTYG 2356354 ......................789*****************************96.....9********************************* PP RVT_1 191 lelnpeKtkithksdevkflGyvi 214 ++lnp+K+++ ++ +flGyv+ Chr1_1 2356355 MKLNPTKCTFG--VTSGEFLGYVV 2356376 ***********..*********86 PP == domain 3 score: 149.9 bits; conditional E-value: 6.5e-47 RVT_1 7 gkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslht.........ikalnklsgskwllklDlkkaFdsiphdpllkkltafgl 92 + yRp+s+++v++ki++k++a+rL+ +l++ + ++ +f + r l++ ++++++ +s++++k+D++kaF+s++++++ ++l+++ + Chr1_1 2830213 SHYRPLSCCNVIYKIISKIIANRLKMVLPKFIAGNQTAFVKDRLLIEnlllatelvKDYHKESVSSRCAIKIDISKAFNSVQWSFIRNILLSMDF 2830307 68******************************************************99999999******************************* PP RVT_1 93 pqrfirlikkllstrsravylegek.geiyesrglpqGsvlSPllfnlflheldkflrkaf............kprllyvrYaDDiligaks.ke 173 p f+++i+ ++st+s++v+++ge g+++++rgl+qG+ lSP+lf+ ++ l+k l +a+ + +l+++++aDD+++++++ ++ Chr1_1 2830308 PMEFVHWIMLCISTASFSVQVNGELvGFFQSKRGLRQGCSLSPYLFVMSMDVLSKLLDQAAsakkfgyhsrckELSLTHLSFADDLMVLSDGkVR 2830402 ************************99******************************************************************888 PP RVT_1 174 eleeileeieeflkelglelnpeKtkith...................ksdevkflGyv 213 + i+e + f+k +gl++++eK++i+ + +v++lG++ Chr1_1 2830403 SIDGIVEVFDIFAKFSGLKISMEKSTIYLagvtedvyheiqnryqfdvGQLPVRYLGLP 2830461 899999999999999*******************************99999****9986 PP == domain 4 score: 77.2 bits; conditional E-value: 1.1e-24 RVT_1 1 ipkkg....tgkyRpisllsvddkilqklla.krLeeileplfsepshgfrpgrslht...........ikalnklsgskwllklDlkkaFdsip 79 ipk+ ++++Rpisl+++ +k+++k+++ + L++il++ +se + +f gr + + ++++ +++ + +k+D++kaFd++ Chr1_1 3425542 IPKTErprsMTEFRPISLCNIVYKVISKVFS*R-LKNILSNMISETQSAFVAGRLIADniliaqenfhaLRSNVACKKKIMPIKTDMSKAFDRVK 3425635 7888888899********************998.999********************************55556789****************** PP RVT_1 80 hdpl..lkkltafglpqrfirlikkllstrsravylegek.geiyesrglpq.GsvlSPllfnlflheldkflrkaf.............kprll 157 ++l l ++++ +++++i+ ++ ++ ++s+++ l+g++ g i+++rgl G+++SP+lf l++++l ++++a +p+ Chr1_1 3425636 GHFL*vL--MEKMEFSKTWIDRVMLCIFSVSYKMILNGTSrGLIKSTRGL-R*GDPISPFLFILCTEALIAQFKSAEwnghiqglqvskaSPSTS 3425727 **96644..556667999********************976777777776.899*********************99****************** PP RVT_1 158 yvrYaDDiligaks.keeleeileeieeflkelglelnpeKt 198 ++++aDD l+++k +++ ++i+++i+++ +++g++ln e + Chr1_1 3425728 HLLFADDSLFFCKAnESQGKAIIDIIRSYGEASGQQLNFENS 3425769 **************9999********************8865 PP == domain 5 score: 45.2 bits; conditional E-value: 7.2e-15 RVT_1 1 ipkkgtgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqr 95 ++kk+ g +R+ vd+ l+ +++k + + ++++ +++l+gs +++k+Dl+++++++++dp + taf+++ Chr1_1 4334178 VKKKD-GTWRLC----VDYTELNGMTVK---------DRFLIPLIEDL--------MDELGGSVVFSKIDLRAGYHQVRMDPDDIQKTAFKTH-- 4334248 68999.*****5....5***********.........99888888888........899******************************9999.. PP RVT_1 96 firlikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflkelg 190 ++++e+ ++ +G+ ++P+ f+ +++ +++++ ++ +++++ DDili+++s ee++e+l+ + e+++ ++ Chr1_1 4334249 ----------------------NGHFEYLVMLFGLTNAPATFQSLMNSVFRDFLRK-----FVLVFFDDILIYSSSIEEHKEHLRLVFEVMRLHK 4334316 ......................789****************************997.....6***********************9999988777 PP RVT_1 191 lel 193 l Chr1_1 4334317 LFA 4334319 655 PP == domain 6 score: 44.9 bits; conditional E-value: 8.9e-15 RVT_1 1 ipkkgtgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqr 95 ++kk+ g++R + vd+++l+k++ + +p + ++ l++++g ++++lDlk+ +++i+++ + taf+++ Chr1_1 4445631 VKKKD-GGWRFL----VDYRALNKVTIP---------DRYPIPVKEEI--------LDEFKGVDVFSNLDLKSRYHHIRMKASDVEKTAFKTH-- 4445701 689*9.*****8....8***********.........99888888888........999******************************9999.. PP RVT_1 96 firlikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiliga.kskeeleeileeieeflkel 189 ++++ + ++p+ + +P f+ ++++l+++ ++ +++++ DDili++ + e + ++le++ + l+ + Chr1_1 4445702 ----------------------QGHCKFLVMPFELTSAPSTFQSIMNDLFRPYLRK-----FMLVFFDDILIYS*DM-EIHVKHLEIVLQLLQLH 4445768 ......................88******************************97.....6**********95554.669************** PP RVT_1 190 glelnpeKtkithksdevkflGyvi 214 ++ +n++K+ + s+++ flG+ i Chr1_1 4445769 KFFVNAKKCVFG--SSKIAFLGHII 4445791 ************..********976 PP == domain 7 score: 98.2 bits; conditional E-value: 4.4e-31 RVT_1 23 qkllakrLeeileplfsepshgfrpgrslht..............ikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqrfirlikkl 103 +k+l++rL+++l++++s+++ f p+ +++ l++ +++k+ ++ka+d +++++l +++a+gl+ ++i++i+ + Chr1_1 4539999 SKILTSRLKKHLPDIVSPSQSTFVPKVW--Flitywlrmrlcii*EPMTESLRNIYMAVKTEISKAYDCVEWPFLEDIMKALGLNMQWISWIMAC 4540091 699***********************54..3559***********778888******************************************** PP RVT_1 104 lstrsravylegek.geiyesrglpqGsvlSPllfnlflheldkflrkaf.............kprllyvrYaDDiligaks.keeleeileeie 183 +s++s++v ++g+ g+i++ rg++q ++lSP lf+l +++l + l+ka + +++++ + DD+l+++k ++e+e++++ ++ Chr1_1 4540092 VSSVSYSVLINGHAfGYIKPCRGIRQDDPLSPSLFVLRTEALIHILNKAEradklsgikfraaGVSVNHLFFDDDTLVMCKAtRSECEDLMRCLS 4540186 *************99*********************************99********************************9************ PP RVT_1 184 eflkelglelnpeKtkith 202 ++ + +g+ +n +Kt +t Chr1_1 4540187 TYGEVSGQMINLTKTAVTF 4540205 ****************996 PP == domain 8 score: 62.4 bits; conditional E-value: 3.8e-20 RVT_1 1 ipkkgtgkyRp.isllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpq 94 ++kk+ g++R+ i d++ l+++++k ++p + ++++ l++l+g+++++k+D+ +++++ip+++++ taf + Chr1_1 4554281 VKKKD-GSFRLcI-----DYRELNRVTVK---------NKYPLPRIDEL--------LDQLRGATCFSKIDFTSGYHQIPIAEADVRKTAFRTR- 4554351 689*9.*****88.....***********.........***********........999******************************9999. PP RVT_1 95 rfirlikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflke. 188 +++e+ ++p+G+ ++P+ f+++++ +++++ + +++ ++DDil+++ks+ee+e +l+++ e l+e Chr1_1 4554352 -----------------------YGHFEFVVMPFGLTNAPAAFMRLMNSVFQEFLDE-----FVIIFIDDILVYSKSPEEHEVHLRRVMEKLRE* 4554418 .......................789*****************************97.....6******************************** PP RVT_1 189 .lglelnpeKtkithksdevkflGyv 213 l +l +K++++ ++e+ flG+ Chr1_1 4554419 kLFAKL--SKCSFW--QREMGFLGLI 4554440 777776..59****..********85 PP == domain 9 score: 142.5 bits; conditional E-value: 1.2e-44 RVT_1 3 kkgtgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslht...........ikalnklsgskwllklDlkkaFdsiphdpllkk 86 k+ ++++Rpisl++v +ki++k+la+rL++++++++se++ +f pgr + + ++ +++ +s +++k+D++ka+d+i++++l + Chr1_1 4564046 KR-MKDFRPISLCNVTYKIISKILARRLKNVMTSVVSENQAAFIPGRYITDnvfiaheimhsLRVQKRCANSYMAIKTDISKAYDRIEWNFLEGV 4564139 44.59********************************************99***********7777899************************** PP RVT_1 87 ltafglpqrfirlikkllstrsravylegek.geiyesrglpqGsvlSPllfnlflheldkflrkaf.............kprllyvrYaDDili 167 l++ g+ +++i++i+ ++ ++s++v ++g+ g + srgl+qG++lSP f l+ + l++++++a +p++ ++++aDD l+ Chr1_1 4564140 LRKKGFASQLIKWIMVCVRSVSFSVLINGSPyGLFEASRGLRQGDPLSPQSFILCADVLSSMITQANrerliqgirvsngRPQISHILFADDSLF 4564234 ******************************98*********************************99**************************** PP RVT_1 168 gaks.keeleeileeieeflkelglelnpeKtkith.......k 203 + k +++ ++l++++++ ++g+++n eK++it + Chr1_1 4564235 FLKAdHKNSSNLLAIFKDYETASGQTINLEKSSITFgnrvfqhT 4564278 ****9999**************************9755555550 PP == domain 10 score: 69.3 bits; conditional E-value: 3e-22 RVT_1 1 ipkkgtgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqr 95 ++kk+ g +R+ vd++ l+ +++k +s p + ++++ +++l+g+ +++k+Dl+++++++++dp + taf+++ Chr1_1 4606969 VKKKD-GTWRLC----VDYRELNGMTVK---------DSFPIPLIEDL--------MDELGGAVIFSKIDLRAGYHQVRMDPDDIQKTAFKTH-- 4607039 689*9.*****5....5***********.........**999999999........899******************************9999.. PP RVT_1 96 firlikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflkelg 190 ++++e+ ++p+G+ ++P+ f+ +++ ++k++ ++ +++++ DDil++++s ee++++l+++ e++++++ Chr1_1 4607040 ----------------------SGHFEYLVMPFGLTNAPATFQGLMNFIFKPFLRK-----FVLVFFDDILVYSSSLEEHRQHLKQVFEVMRANK 4607107 ......................78******************************97.....6********************************* PP RVT_1 191 lelnpeKtkithksdevkflGyv 213 l + +K+ + ++v++lG+ Chr1_1 4607108 LFAKLSKCAFA--VPKVEYLGHF 4607128 ***********..********85 PP == domain 11 score: 71.1 bits; conditional E-value: 8.3e-23 RVT_1 1 ipkkgtgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqr 95 ++kk+ +++R vd+++l++++ + p + ++++ l++l+g+ +++klDl++++++i+++ ++ t f ++ Chr1_1 4673871 VKKKD-QSWRFC----VDYRALNRATIP---------NKFPIPMIDQL--------LDELHGAIIFSKLDLRAGYHQIRMKVEDIEKTTFRTH-- 4673941 68999.*****5....5***********.........77677777777........999**************************99999999.. PP RVT_1 96 firlikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflkelg 190 ++++e+ ++p+G+ ++P+ f+ ++++++++ ++ +++++ DDili++++++e+ee+l+ + ++l+e+ Chr1_1 4673942 ----------------------DGHFEFLVMPFGLSNAPATFQSSMNDMLRPFLRK-----FVLVFFDDILIYSRNEQEHEEHLAMVLKVLEEHQ 4674009 ......................89******************************97.....6********************************* PP RVT_1 191 lelnpeKtkithksdevkflGyvi 214 + n +K+++ + ++++lG+ i Chr1_1 4674010 FYANRKKCSFG--QAKIDYLGHII 4674031 ***********..********976 PP == domain 12 score: 29.7 bits; conditional E-value: 4e-10 RVT_1 85 kkltafglpqrfirlikkllstrsravylegek.geiyesrglpqGsvlSPllf..nlflheldkflrkaf..........kprllyvrYaDDil 166 ++++fg+++++i++i+ + ++s+ v ++g g i++++ ++qG++lS +lf + +l++l+k+ + + ++++++aDD l Chr1_1 4684673 TIMKLFGFSKKWIHWIMGTVRSVSYPVLINGIPhGTIKPQCEIRQGDPLSSYLF*cADILSYLVKMRVSEGdirgirigngVQCVTHLQFADDSL 4684767 57999***************************55*******************77699999998876665589*******99999********** PP RVT_1 167 igaks.keeleeileeieeflke.lglelnpeKtkith....................ksdevkflG 211 ++++ ++++++++ ++ ++ + + +++n+ K+ it ++ + k+lG Chr1_1 4684768 FFCQAnVRNCQALKVAF-DISEYySSQKINMAKSLITFgskvngiiqnrlkrllgiqsQGGGGKYLG 4684833 *****666666655555.555555************9877777777777777777766666666666 PP == domain 13 score: 41.6 bits; conditional E-value: 8.8e-14 RVT_1 4 kgtgkyRp.isllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqrfi 97 +++++ R+ i ++++l+ +++k + p + ++++ l++l ++ ++ +lD ++F++ip++p ++ t f++p Chr1_1 4695872 RTITGHRMcI-----EYRKLNVASRK---------EHFPLPFIDHM--------LERLANHPYYCFLDSYSGFFQIPIHPNDQGKTTFTCP---- 4695940 4477888877.....99999999999.........88888888888........899**********************************.... PP RVT_1 98 rlikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflkelgle 192 +++ ++++p+G+ ++P+ f++++ ++++l + ++ +++DD+ ++ +s + + l ++ + ++e +l Chr1_1 4695941 --------------------YGTFAYKRMPFGLCNAPATFQRCMTSIFSDLIEE-----MVEVFMDDFSVYGSSFSSCLLNLCRVLKRCEETNLV 4696010 ....................789*****************************96.....7*********************************** PP RVT_1 193 lnpeKtkithksdevkflGyv 213 ln eK++++ +e +lG + Chr1_1 4696011 LNWEKCHFM--VREGIVLGRK 4696029 *********..8888888865 PP == domain 14 score: 55.4 bits; conditional E-value: 5.5e-18 RVT_1 1 ipkkgtgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqr 95 ++kk+ k+R vd+ l+k++ k +s p ++++++ ++ +sg+k ++++D +++++i ++p+++ +f ++ Chr1_1 5054810 VKKKN-DKWRVC----VDFTDLNKACPK---------DSFPLPHIDRL--------VESTSGNKLMSFMDAFAGYNQIMMNPEDQEKASFYTE-- 5054880 68999.*****5....5***********.........***********........889******************************9999.. PP RVT_1 96 firlikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflkelg 190 ++i+++ ++p+G++++ + +++f+++++ ++ ++ +Y+DD+l+ + +ee+ ++l+e+ + l+ ++ Chr1_1 5054881 ----------------------QGIFCYQVMPFGLKNAGATYQRFVNKIFALQIRK-----TMEVYIDDMLVKSMAEEEHVSHLRECFQQLNLYN 5054948 ......................89**************************988884.....9********************************* PP RVT_1 191 lelnpeKtkithksdevkflGy 212 +lnp K+++ ++ +flGy Chr1_1 5054949 VKLNPAKCRFG--VRSGEFLGY 5054968 ***********..********9 PP == domain 15 score: 28.6 bits; conditional E-value: 8.4e-10 RVT_1 1 ipkkgtgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqr 95 ++kk+ gk+R vd+ l+k++ k +s p ++++++ ++ +sg+k l+++D +++++i ++p ++ taf ++ Chr1_1 5100643 VKKKN-GKWRVC----VDFTDLNKGCPK---------DSFPLPHIDRL--------VESTSGNKLLSFMDAFAGYNKIMMNPKDQEKTAFYTE-- 5100713 68999.*****5....5***********.........***********........889******************************9999.. PP RVT_1 96 firlikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeie 183 ++i+++r++p+G++++ + ++ f+++++ + ++ +Y+DD+l+ + ++++ +l+e++ Chr1_1 5100714 ----------------------QGIFCYRVMPFGLKNAGATYQGFVNKIFALQIGK-----TMEVYIDDMLVKSMAEKDHIPHLREFS 5100774 ......................89***************************99995.....9**************999988888776 PP == domain 16 score: 28.6 bits; conditional E-value: 8.4e-10 RVT_1 1 ipkkgtgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqr 95 ++kk+ gk+R vd+ l+k++ k +s p ++++++ ++ +sg+k l+++D +++++i ++p ++ taf ++ Chr1_1 5133337 VKKKN-GKWRVC----VDFTDLNKGCPK---------DSFPLPHIDRL--------VESTSGNKLLSFMDAFAGYNKIMMNPKDQEKTAFYTE-- 5133407 68999.*****5....5***********.........***********........889******************************9999.. PP RVT_1 96 firlikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeie 183 ++i+++r++p+G++++ + ++ f+++++ + ++ +Y+DD+l+ + ++++ +l+e++ Chr1_1 5133408 ----------------------QGIFCYRVMPFGLKNAGATYQGFVNKIFALQIGK-----TMEVYIDDMLVKSMAEKDHIPHLREFS 5133468 ......................89***************************99995.....9**************999988888776 PP == domain 17 score: 40.7 bits; conditional E-value: 1.7e-13 RVT_1 2 pkkgtgkyRp.isllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqr 95 p +++++ R+ i d+++l++ +k ++ p + ++++ l++l ++ ++ +lD ++F++ip++p ++ + f++p Chr1_1 5165619 PTRTITGHRMcI-----DYRKLNAPYRK---------DHFPLPFIDQM--------LERLANHPYYCFLDGYSGFFQIPIHPNDQEKNTFTCP-- 5165689 555578899977.....***********.........99999999999........899**********************************.. PP RVT_1 96 firlikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflkelg 190 +++ ++++p+G+ ++P+ f++++ ++++l + ++ +++DD+ ++ s + + l ++ + ++e + Chr1_1 5165690 ----------------------YGTFAYKRMPFGLCNAPATFQRCMTSIFSDLIEE-----MVEVFMDDFSVYGPSFSSCLLNLGRVLTRCEETN 5165757 ......................789*****************************96.....7********************************* PP RVT_1 191 lelnpeKtkith 202 l ln eK++++ Chr1_1 5165758 LVLNWEKCHFMV 5165769 *********993 PP == domain 18 score: 140.0 bits; conditional E-value: 7e-44 RVT_1 1 ipkkg....tgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslht...........ikalnklsgskwllklDlkkaFdsiph 80 ipk + ++yRpi+l+++ +ki++k+l+ rL+++l+ ++s+p+ +f pgr + + +k +++s+s +++k+D++k +d++++ Chr1_1 5209292 IPKITnlvtLSDYRPIALCNFLYKIISKCLVERLKRHLDAIVSDPQAAFIPGRLVNDnvmiahemmhsLKVRKRVSQSYMAVKTDVSKDYDRVEW 5209386 566666777899********************************************9***********777789********************* PP RVT_1 81 dpllkkltafglpqrfirlikkllstrsravylegek.geiyesrglpqGsvlSPllfnlflheldkflrkaf.............kprllyvrY 161 ++l ++++fg+++++i++i+ + +++++v ++g g i+++rg++qG++lSP+lf l+ + l + +++++ p+++++++ Chr1_1 5209387 NFLETTMRLFGFSEQWINWIMGTVRSVNYSVLINGIPhGTIKPQRGIRQGDPLSPYLFILCADILIHLINSRVshgdndglrigngVPGVTHLQF 5209481 ************************************55********************************************************* PP RVT_1 162 aDDiligaks.keeleeileeieeflkelglelnpeKtkith....................ksdevkflG 211 DD l++++ ++++++++ + + +g+++n+ K+ it ++ + k+lG Chr1_1 5209482 TDDSLFFCQAnARNCQALKDVFDIYEYYSGQKINMVKSMITFgskvhgviqnrlksilqiqsHEGGGKYLG 5209552 **********555566666666666666*************777666666666666666666666666666 PP == domain 19 score: 63.3 bits; conditional E-value: 2.1e-20 RVT_1 24 kllakrLeeileplfsepshgfrpgrslht...........ikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqrfirlikkllst. 106 ++l++r ++il++l+s+ + +f gr + + +++++ +++ +++k+ ++ka+d++++++l ++++ +p++ + Chr1_1 5414007 EILSSRFKKILSELISKTQSAFVAGRLITDniliaqenfyaLQTNSTYKKKFMAIKTEMSKAYDRVEWSFLRALMLKWVSPRN----------E* 5414091 577889999*******************99**********96665678999**************************999955..........47 PP RVT_1 107 ................rsravylegek.geiyesrglpqGsvlSPllfnlflheldkflrkaf.............kprllyvrYaDDiligaks 171 g + +i+++rg++qG+ +SP+lf l+ +l+ +l++a +p+ ++++ DD l+++k Chr1_1 5414092 t*lvfvspmfhiefs*M-------GYRwVFIKPTRGIRQGDSISPFLFILCSKALVANLKSAEwigriqglqisraSPSTSHLLFTDDSLFFCKA 5414179 77777775555444441.......44449********************************99******************************** PP RVT_1 172 .keeleeileeieeflkelglelnpeKtkith 202 +++ +ei+++++ + +++g++ln+ K+ ++ Chr1_1 5414180 ePSQGQEIINILRLYGEASGQQLNTAKSLVMF 5414211 ****************************9985 PP == domain 20 score: 136.5 bits; conditional E-value: 8.2e-43 RVT_1 4 kg.tgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslht.........ikalnklsgs.kwllklDlkkaFdsiphdpllkkl 87 + ++++Rpisl++v +k++ k+++ rL++++++l+ +++ f pgr ++ +++ +k +++ ++llklDl+ka+d+i++d+l ++l Chr1_1 5438073 PEkITQFRPISLCNVLFKVITKMMVIRLKSVISKLIGPAQASFIPGRLSIDnivvvqeavHSMRRKKGRKgWMLLKLDLEKAYDRIRWDFLEETL 5438167 44579******************************************************966666666666999********************* PP RVT_1 88 tafglpqrfirlikkllstrsravylegek.geiyesrglpqGsvlSPllfnlflheldkflrkaf.............kprllyvrYaDDilig 168 +a gl++ ++r i++++++ ++ ++gek +++++ rgl+qG++lSP+lf+l++++l++ + + +p++ +v++aDD++++ Chr1_1 5438168 QAAGLSSGWTRRIMECVANPAMSLLWNGEKtESFKPARGLRQGDPLSPYLFVLCMERLCQLIDFEVgnknwkpinlsrgGPKISHVCFADDLILF 5438262 *****************************87********************************999***************************** PP RVT_1 169 aks.keeleeileeieeflkelg..lelnpeKtkith..................ksdevkflGyv 213 a+ + +++ i + +e+f+ ++g +l ++K+ + + ++d k+lG++ Chr1_1 5438263 AEAsVVQIRVIRRVLERFCLSSG*kVSLEKSKIFFSSnvsrdmerlitvesgigsTRDLGKYLGMP 5438328 ***9999**************975577777777666677777777777777777666667777765 PP == domain 21 score: 141.4 bits; conditional E-value: 2.6e-44 RVT_1 1 ipkkg....tgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslht...........ikalnklsgskwllklDlkkaFdsiph 80 ipk+ +++ Rpisl++v +k+++k++++rL+++l++l+se + +f +gr + + ++++ +g+ +++k+D++ka+d++++ Chr1_1 5441027 IPKTErptrMTELRPISLCNVGYKVISKIICQRLKTVLPNLISETQSAFVEGRLISDniliaqemfhgLRTNPSCKGKFMAIKTDMSKAYDRVEW 5441121 6888888899**********************************************9***********7777789******************** PP RVT_1 81 dpllkkltafglpqrfirlikkllstrsravylege.k.geiyesrglpqGsvlSPllfnlflheldkflrkaf.............kprllyvr 160 +++ +l+++g+++++i++i+ +++t++++v ++g+ k i ++rgl+qG++ SP+lf l+++ l ++rka +p + +++ Chr1_1 5441122 KFIEVLLRKMGFCDKWISWIMWCITTVQYKVLINGQpK*L-IIPERGLRQGDPFSPYLFILCTEVLIANIRKAEhgklitgikvaapSPPVSHLL 5441215 ***********************************95555.5678***************************99********************* PP RVT_1 161 YaDDiligaks.keeleeileeieeflkelglelnpeKtkit 201 +aDD l+++k ke++e+il +++++ + +g+++n +K++i Chr1_1 5441216 FADDSLFFCKAnKEQCETILGILKQYEAVSGQQINFSKSSIQ 5441257 ***********8999************************986 PP >> Transposase_21 Transposase family tnp2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 309.1 0.2 1.2e-95 3.6e-95 1 225 [. 4315009 4315233 .. 4315009 4315234 .. 0.99 2 ! 242.4 0.2 3e-75 8.8e-75 2 169 .. 4690787 4690953 .. 4690786 4690956 .. 0.98 3 ! 306.1 0.4 1e-94 3e-94 2 225 .. 5050710 5050933 .. 5050709 5050934 .. 0.99 4 ! 307.8 0.0 3.2e-95 9.1e-95 2 219 .. 5070263 5070482 .. 5070262 5070487 .. 0.97 5 ! 268.9 0.0 2.5e-83 7.3e-83 2 220 .. 5360666 5360886 .. 5360665 5360890 .. 0.96 Alignments for each domain: == domain 1 score: 309.1 bits; conditional E-value: 1.2e-95 Transposase_21 1 kemrwhkeerkkdgklrhpaDgeaWkkfdekypeFakdaRnvrlgLstDGfnPfgklsssyslWpvllvpynlppelcmkeenills 87 k++rwh ++++ dgklrhp+D+ +W k+++kypeFa+++Rn+rlgLstDGfnPf++++++ys+Wpvllv+ynlp +lcmk+eni+ls Chr1_1 4315009 KDLRWHYSNKSIDGKLRHPVDSVTWDKMNDKYPEFAAEERNLRLGLSTDGFNPFNMKNTRYSCWPVLLVNYNLPLDLCMKKENIMLS 4315095 579************************************************************************************ PP Transposase_21 88 llipGpkqpgkdidvflepLieeLkeLweeGvetyDaskkenFtlraallwtinDlpalgnlsgqstkGklacpiCleetkskrlkk 174 llipGp+qpg++idv+lepLie+L++Lw++G tyDa++k++Ftl+a+llwti+D+ a+gnl+g+++kGk+ cp C + t+s++lk Chr1_1 4315096 LLIPGPQQPGNSIDVYLEPLIEDLNHLWKKGELTYDAFSKTTFTLKAMLLWTISDFSAYGNLAGCKVKGKMGCPLCGKGTDSMWLKY 4315182 *************************************************************************************** PP Transposase_21 175 gkkvvylghrrflpakhpfrknkksfdgkeeeeeapkelsgeevleelkkl 225 ++k+v++ hr+ l +h++r++k++fdgk e+ ++ + l+g+ev ++lk++ Chr1_1 4315183 SRKHVFMCHRKGLAPTHSYRNKKAWFDGKIEHGRKARILTGREVSQTLKNF 4315233 **********************************************99987 PP == domain 2 score: 242.4 bits; conditional E-value: 3e-75 Transposase_21 2 emrwhkeerkkdgklrhpaDgeaWkkfdekypeFakdaRnvrlgLstDGfnPfgklsssyslWpvllvpynlppelcmkeenillsl 88 mrwh+e+++k+++++hp+D+++W+ f+e +p Fa+++Rnv+lgL+tDGfnPfg+ s+++ lW v+++pynlpp +cm++e+++l++ Chr1_1 4690787 VMRWHAEHQSKEEEMNHPSDAAEWRYFQELHPMFAEEPRNVYLGLCTDGFNPFGM-SRNHFLWLVIVTPYNLPPGMCMNTEYLFLTI 4690872 59***************************************************87.788**************************** PP Transposase_21 89 lipGpkqpgkdidvflepLieeLkeLweeGvetyDaskkenFtlraallwtinDlpalgnlsgqstkGklacpiCleetks 169 l +Gp++p+ ++dvfl+pLieeLkeLw++G+++yD+s ++nF+l+a+llwti+D+ a+++lsg +t+Gkl+cpiC+e+t+ Chr1_1 4690873 LNHGPNHPRGSLDVFLQPLIEELKELWSTGIDAYDVSLNRNFNLKAVLLWTISDFLAYNMLSGSTTHGKLSCPICMESTNF 4690953 *****************************************************************************9986 PP == domain 3 score: 306.1 bits; conditional E-value: 1e-94 Transposase_21 2 emrwhkeerkkdgklrhpaDgeaWkkfdekypeFakdaRnvrlgLstDGfnPfgklsssyslWpvllvpynlppelcmkeenillsl 88 ++rwh +++++dgkl hp+++ +W ++++kyp Fa+++Rn+rlgLstDGfnPf++++++ys+Wpvllv+ynlpp+lcmk+eni+l+l Chr1_1 5050710 DLRWHFHNKSTDGKLCHPVNSVTWDQMNAKYPLFASKERNLRLGLSTDGFNPFNMKNTRYSCWPVLLVNYNLPPDLCMKKENIMLTL 5050796 79************************************************************************************* PP Transposase_21 89 lipGpkqpgkdidvflepLieeLkeLweeGvetyDaskkenFtlraallwtinDlpalgnlsgqstkGklacpiCleetkskrlkkg 175 lipGp+qpg++idv+lepLi++L +Lw +G tyDa++k++Ftl+a+llwti+D+ a+gnl+g+++kGk+acp C ++t+s++ k + Chr1_1 5050797 LIPGPQQPGNSIDVYLEPLIDDLCHLWDNGELTYDAFSKSSFTLKAMLLWTISDFSAYGNLAGCKVKGKMACPLCGKHTESMWFKFS 5050883 *************************************************************************************** PP Transposase_21 176 kkvvylghrrflpakhpfrknkksfdgkeeeeeapkelsgeevleelkkl 225 +k+vy+ghr+ lp +h+fr++k++fdgk+e++++++ lsg e+ ++lk++ Chr1_1 5050884 RKHVYMGHRMGLPPSHRFRNKKSWFDGKAEHRRKSRILSGLEISHNLKNF 5050933 *******************************************9999876 PP == domain 4 score: 307.8 bits; conditional E-value: 3.2e-95 Transposase_21 2 emrwhkeerkkdgklrhpaDgeaWkkfdekypeFakdaRnvrlgLstDGfnPfgklsssyslWpvllvpynlppelcmkeenillsl 88 +mrwh+e+++k+g+++hp+D+++W+ f+e +p+Fa+++Rnv+lgL+tDGfnPfg+ s+++slWpv+l+pynlp +cm++++++l++ Chr1_1 5070263 TMRWHAEHQSKEGEMNHPSDAAEWRYFQELHPRFAEEPRNVYLGLCTDGFNPFGM-SRNHSLWPVILTPYNLPLGMCMNTKYLFLTI 5070348 6****************************************************87.888**************************** PP Transposase_21 89 lipGpkqpgkdidvflepLieeLkeLweeGvetyDaskkenFtlraallwtinDlpalgnlsgqstkGklacpiCleetkskrlkkg 175 l +Gp++p++ +dvfl+pLieeLkeLw +Gv++yD+s ++nF+l+a+llwti+D+pa+++lsg++t+Gkl+cp+C+e+tks++l +g Chr1_1 5070349 LNSGPNHPRAILDVFLQPLIEELKELWCTGVDAYDVSLSQNFNLKAVLLWTISDFPAYSMLSGWTTHGKLSCPVCMESTKSFYLPNG 5070435 *************************************************************************************** PP Transposase_21 176 kkvvylg.hrrflpakhpfrknkksfdgk..eeeeeapkelsgeevl 219 +k+++++ hrrflp+ hp r+nkk+f + +++e +p++l ge+++ Chr1_1 5070436 RKTCWFDcHRRFLPHGHPSRRNKKDFLKGrdASSEYPPESLIGEQIY 5070482 **************************988566778889999999886 PP == domain 5 score: 268.9 bits; conditional E-value: 2.5e-83 Transposase_21 2 emrwhkeerkkdgklrhpaDgeaWkkfdekypeFakdaRnvrlgLstDGfnPfgklsssyslWpvllvpynlppelcmkeenillsl 88 mrwh+e+++k+g++++p D+++W+ f+e +p+Fa+++Rnv+lgL+tDGfnPfg+ s+++slWpv+l pynlpp +cm+ e+++l++ Chr1_1 5360666 VMRWHAEHQSKEGEMNNPLDAAEWRYFQELHPRFAEEPRNVYLGLCTDGFNPFGM-SRNHSLWPVILNPYNLPPGMCMNIEYLFLTI 5360751 59***************************************************87.888**************************** PP Transposase_21 89 lipGpkqpgkdidvflepLieeLkeLweeGvetyDaskke.nFtlraallwtinDlpalgnlsgqstkGklacpiCleetkskrlkk 174 l +Gp+++++++dvfl+pLieeLkeL ++Gv++y s + nF+l+++llwti+D+pa+++lsg++t+ kl+cp+C+e+tks++l + Chr1_1 5360752 LNSGPNHSRASLDVFLQPLIEELKELLSTGVDAYSFS-LS*NFNLKVVLLWTISDFPAYSMLSGWTTHDKLSCPVCMESTKSFYLPN 5360837 **********************************755.5788********************************************* PP Transposase_21 175 gkkvvylg.hrrflpakhpfrknkksfdgk..eeeeeapkelsgeevle 220 g+k+++++ hrrf + hp r+n+k+f + +++e +p++l++e+v+ Chr1_1 5360838 GRKTCWFDcHRRFFLHGHPSRRNRKDFLKGrdASSEYPPESLTREQVYY 5360886 ***************************9886677888999999999875 PP >> rve Integrase core domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 78.2 0.0 5.3e-25 1.5e-24 4 118 .. 1897977 1898089 .. 1897976 1898091 .. 0.98 2 ! 67.2 0.0 1.4e-21 4e-21 3 117 .. 2356899 2357010 .. 2356897 2357013 .. 0.95 3 ! 70.4 0.0 1.4e-22 4.1e-22 26 119 .. 2573235 2573328 .. 2573217 2573329 .. 0.95 4 ! 80.2 0.1 1.3e-25 3.9e-25 4 118 .. 3159249 3159361 .. 3159247 3159362 .. 0.98 5 ! 79.8 0.1 1.8e-25 5.1e-25 6 118 .. 3566291 3566401 .. 3566288 3566403 .. 0.97 6 ! 94.4 0.3 5e-30 1.4e-29 4 118 .. 4252381 4252495 .. 4252379 4252497 .. 0.98 7 ! 46.7 0.0 3.1e-15 8.9e-15 9 119 .. 4334682 4334790 .. 4334675 4334791 .. 0.94 8 ! 44.8 0.1 1.2e-14 3.4e-14 53 119 .. 4366605 4366671 .. 4366603 4366672 .. 0.96 9 ! 42.0 0.0 8.8e-14 2.5e-13 2 118 .. 4442167 4442274 .. 4442166 4442276 .. 0.94 10 ! 79.7 0.0 1.9e-25 5.5e-25 4 117 .. 4520687 4520798 .. 4520686 4520800 .. 0.98 11 ! 54.3 0.0 1.3e-17 3.8e-17 3 119 .. 4554806 4554920 .. 4554804 4554921 .. 0.93 12 ! 46.2 0.0 4.6e-15 1.3e-14 6 118 .. 4607478 4607588 .. 4607474 4607590 .. 0.93 13 ! 88.0 0.1 5e-28 1.4e-27 5 119 .. 4652088 4652204 .. 4652084 4652205 .. 0.93 14 ! 61.8 0.0 6.3e-20 1.8e-19 11 118 .. 5166156 5166260 .. 5166151 5166262 .. 0.95 15 ! 70.9 0.0 9.8e-23 2.8e-22 2 119 .. 5219273 5219390 .. 5219272 5219391 .. 0.95 16 ! 26.4 0.0 6.1e-09 1.7e-08 5 85 .. 5529719 5529797 .. 5529716 5529798 .. 0.95 17 ! 73.2 0.2 1.9e-23 5.4e-23 5 117 .. 5685754 5685864 .. 5685752 5685866 .. 0.97 18 ! 48.8 0.0 7e-16 2e-15 44 117 .. 7706772 7706845 .. 7706765 7706847 .. 0.93 Alignments for each domain: == domain 1 score: 78.2 bits; conditional E-value: 5.3e-25 rve 4 rpgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkf 97 +p++l++iDv+ p++ p+++g++y+lt++dd++r+++++ +k +s++ t++ + ++ve + + ++k ++sDn++e++ fe+l ++ gi ++ Chr1_1 1897977 APFDLLHIDVWgPFSEPTQEGYHYFLTIVDDHTRVTWVYLMKYKSDVLTIFPDFITMVETQYDTKVKAVRSDNAPELK---FEELYRRKGIVAYH 1898068 699*********9999**************************************************************...************** PP rve 98 trpyrpqdngkvErfnrtlke 118 ++p +p++n++vEr+++++ + Chr1_1 1898069 SCPETPEQNSVVERKHQHILN 1898089 ******************975 PP == domain 2 score: 67.2 bits; conditional E-value: 1.4e-21 rve 3 trpgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhk 96 + p+ +w +D++ p++ + +k+++l+++d f++++ ae + + +a +v++++++++ r+g p ++++Dngs+f s +fe+++++++ir+ Chr1_1 2356899 PYPFMRWAMDIVgPMP--ASRQKRFILVMTDYFTKWVEAESYATI-RANDVQNFVWKFIICRHGL-PYEIITDNGSQFISLSFENFCASWKIRLN 2356989 67999*******9999..44558**********************.*******************.***************************** PP rve 97 ftrpyrpqdngkvErfnrtlk 117 ++p+ pq ng++E +n+t+ Chr1_1 2356990 KSTPRYPQGNGQAEATNKTIL 2357010 *******************97 PP == domain 3 score: 70.4 bits; conditional E-value: 1.4e-22 rve 26 ylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkftrpyrpqdngkvErfnrtlkee 119 + +iddfsr++++++lk +s+++ +++ +++ ve+ g +k+++sD+g eftsk+f ++++++gir + t p++pq+ng++Er+nrt+ e+ Chr1_1 2573235 HYSFLIDDFSRKTWVYFLKEKSEVFKIFKKFKAHVEKESGLVIKTMRSDRGGEFTSKEFLKYCEDNGIRRQLTVPRSPQQNGVAERKNRTILEM 2573328 66789**************************************************************************************986 PP == domain 4 score: 80.2 bits; conditional E-value: 1.3e-25 rve 4 rpgelwqiDvtpgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkft 98 p+e + +Dv++ ++ s+++++y l+++d ++r+++ ++lk++s++ +++ +++++ve+r++ ++++l+sDng ef a++++l +gi h ++ Chr1_1 3159249 TPLEYVYSDVWTSPVTSVDNFKYYLILVDHYTRYTWLYPLKQKSQVRETFVAFKALVENRFQTKIRTLYSDNGGEFI--ALRQFLLTHGISHLTS 3159341 5999*************************************************************************..9*************** PP rve 99 rpyrpqdngkvErfnrtlke 118 p++p+ ng++Er++r++ e Chr1_1 3159342 LPHTPEHNGIAERKHRHILE 3159361 *****************976 PP == domain 5 score: 79.8 bits; conditional E-value: 1.8e-25 rve 6 gelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkftr 99 +el++iD++ p+++++++g++y+lt++dd+sr ++++ lk+++++ +++ ++ + ve++ + ++k ++sDn++e++ f+++ k++gi ++++ Chr1_1 3566291 FELLHIDIWgPFSVETVEGFKYFLTLVDDHSRATWIYLLKNKNDVLSIFPAFITQVEKQYNTKVKGVRSDNAKELQ---FTQFYKDHGIVSYHSC 3566382 799************************************************************************9...**************** PP rve 100 pyrpqdngkvErfnrtlke 118 p +p++n++vEr+++++ + Chr1_1 3566383 PETPEQNSVVERKHQHILN 3566401 ****************975 PP == domain 6 score: 94.4 bits; conditional E-value: 5e-30 rve 4 rpgelwqiDvtpgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkft 98 + ++l+++Dv++ ++ s+++++y++t+i +s++++++ l++++++++++ +e+ v+++++ ++k++++Dng e+ts++f++ l++ gi h+++ Chr1_1 4252381 KCFDLVHSDVWTSPCVSRDNNKYFVTFINEKSKYTWITLLPSKDRVFEAFTNFETYVTNQFNAKIKVFRTDNGGEYTSQKFRDHLAKRGIIHQTS 4252475 6789******************************************************************************************* PP rve 99 rpyrpqdngkvErfnrtlke 118 +py+pq+ng++Er+nr+l+e Chr1_1 4252476 CPYTPQQNGVAERKNRHLME 4252495 ******************97 PP == domain 7 score: 46.7 bits; conditional E-value: 3.1e-15 rve 9 wqiDvtpgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkftrpyrp 103 +++D+++g p+ ggk+ + +++d+ s+ ++++al + sa tva+++ v++++g+ p +++sD+ fts +++++k g++++++ +y+p Chr1_1 4334682 VSMDFIEGL-PNSGGKSVIMVVVDRLSKAAHFVALAHPYSALTVAQAFLDNVYKHHGC-PTSIVSDRDVLFTSDFWKEFFKLQGVELRMSSAYHP 4334774 78****999.66666*******************************************.************************************ PP rve 104 qdngkvErfnrtlkee 119 q+ g+ E nr l++ Chr1_1 4334775 QSDGQTEVVNRCLENY 4334790 ************9875 PP == domain 8 score: 44.8 bits; conditional E-value: 1.2e-14 rve 53 adlleraverrggvepkrllsDngseftskafeallkelgirhkftrpyrpqdngkvErfnrtlkee 119 + ++++ve + +++ k+l++Dng ef++++f ++k+ gi +++t++y+pq+ng+ Er n+t++++ Chr1_1 4366605 FTEWKKMVETHSERKLKKLRTDNGLEFCNQKFDGFCKKEGIVLQRTCTYTPQQNGVEERLNKTIMNR 4366671 66799***********************************************************987 PP == domain 9 score: 42.0 bits; conditional E-value: 8.8e-14 rve 2 atrpgelwqiDvtpgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrlls...Dngseftskafeallkelgi 93 trp+e +++Dv++ + + +++id f+r+ + ++l+++s++++v+ +++++ve+r++++ + + Dng e+ a++++l + gi Chr1_1 4442167 STRPLEYICTDVWTSP-------NNYFVLIDHFTRYSWLYPLQRKSDVKEVFIVFKNLVENRFQCR---IGTlf*DNGGEYI--ALRSFLTAQGI 4442249 689*************.......7899*************************************97...66668********..9********** PP rve 94 rhkftrpyrpqdngkvErfnrtlke 118 h ++ p++p+ n+++ r++ ++ e Chr1_1 4442250 SHLTSLPHTPEHNSLAKRKHMHIVE 4442274 ********************99866 PP == domain 10 score: 79.7 bits; conditional E-value: 1.9e-25 rve 4 rpgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkf 97 +p++l++iDv+ p++ p+++g++y+lt++dd++r+++++ +k++s++ t++ ++ ++ve + + ++k ++sDn++e++ fe+l ++ gi ++ Chr1_1 4520687 APFDLLHIDVWgPFSEPTQEGYHYFLTIVDDYTRVTWVYLMKFKSDVLTIFLCFITMVETQYQTKVKDVRSDNAPELK---FEELYRRKGIVAYH 4520778 699*********9999**************************************************************...************** PP rve 98 trpyrpqdngkvErfnrtlk 117 ++p +p++n++vEr+++++ Chr1_1 4520779 SCPETPEQNSVVERKHQHIL 4520798 ******************96 PP == domain 11 score: 54.3 bits; conditional E-value: 1.3e-17 rve 3 trpgelwqiDvtpgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkf 97 + +++ +++D++ g + s+ k +++++d+ ++ +++ a+++++ ++++a+ + + + +gv p +++sD+ s fts+ ++a+ +e+g+++++ Chr1_1 4554806 EWKWDFITMDFVIGLPVSRT-KDAIWVIVDRLTKSAHFLAIRKTDGVAVLAKKYVSEIVKLHGV-PVSIVSDRDSKFTSAFWRAFQAEMGTKVQM 4554898 56788899****66645555.7******************************************.****************************** PP rve 98 trpyrpqdngkvErfnrtlkee 119 +++y+pq+ g+ Er+++tl+++ Chr1_1 4554899 STAYHPQTDGQSERTIQTLEDM 4554920 *******************997 PP == domain 12 score: 46.2 bits; conditional E-value: 4.6e-15 rve 6 gelwqiDvtpgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkftrp 100 ++ +++D+++g + ggk+ + +++d+ s+ ++++al++ sa tva++ v + +g+ p +++sD+ fts+ +++++ g+ +k t + Chr1_1 4607478 WSEVSMDFIEGLP-VSGGKTVIMVVVDRLSKAAHFIALSHPYSALTVAQAYLDNVFKLHGC-PTSIVSDRDVVFTSEFWREFFTLQGVALKLTSA 4607570 67899****8884.44559******************************************.********************************* PP rve 101 yrpqdngkvErfnrtlke 118 y+pq+ g+ E nr l++ Chr1_1 4607571 YHPQSDGQTEVVNRCLET 4607588 **************9986 PP == domain 13 score: 88.0 bits; conditional E-value: 5e-28 rve 5 pgelwqiDvt..pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkf 97 ++ ++ D + + ps g++y+l +idd+sr+++ ++l++++++++ ++ ++++ve++ ++++k l++Dng ef++ +f +++k++gi+ + Chr1_1 4652088 ILSYVHADLWgsQNVTPSMSGNKYFLSIIDDKSRKVWLYFLRSKDETFDKFCEWKELVENQTDKRVKCLRTDNGLEFCNIKFDSYCKKYGIERHK 4652182 5788999999874344677779************************************************************************* PP rve 98 trpyrpqdngkvErfnrtlkee 119 t++y+pq+ng++Er+nrt++e+ Chr1_1 4652183 TCTYTPQQNGVAERMNRTVMEK 4652204 *******************986 PP == domain 14 score: 61.8 bits; conditional E-value: 6.3e-20 rve 11 iDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkftrpyrpq 104 iD+ p++ +s+g ++y+l+a+ s+++ a+a ++ +a++v++l+++++ r+gv p++++sD g+ f +k fe+llk++g++hk ++py+pq Chr1_1 5166156 IDFMgPFS-SSYG-NKYILVAVNYVSKWVEAIASPTN-DAKVVLKLFKTIIFPRFGV-PRVVISDGGKYFINKVFENLLKKHGVKHKVATPYHPQ 5166246 89998888.5666.8**********************.*******************.************************************* PP rve 105 dngkvErfnrtlke 118 + g+vE +nr +k+ Chr1_1 5166247 TSGQVEISNREIKT 5166260 ***********997 PP == domain 15 score: 70.9 bits; conditional E-value: 9.8e-23 rve 2 atrpgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrll.sDngseftskafeallkelgir 94 +t+p++l+++D + ++++ggk+y++t++dd++r+++++ l+++++a + ++ + ve++ ++ +++ sD+g e+ + f +++e +i Chr1_1 5219273 TTEPLGLIHTDLCdLKYVQTRGGKKYFVTFLDDCTRYCYVYLLHNKDEALVKFKEFTLEVENQLQR-TTEIV*SDRGGEYN-EPFNVFCREKDII 5219365 689**********9555679999******************************************9.7*************.89*********** PP rve 95 hkftrpyrpqdngkvErfnrtlkee 119 hk+t+py+p++ng++Er+n+tlke+ Chr1_1 5219366 HKTTAPYSPESNGVAERKNQTLKEM 5219390 ***********************97 PP == domain 16 score: 26.4 bits; conditional E-value: 6.1e-09 rve 5 pgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafe 85 +++w iD+ p+++ s+g ++y+l+a+d s+++ a+a ++ ++++v++l+++++ r+g p++++sD gs f +k fe Chr1_1 5529719 VFDVWGIDFMgPFEPASYG-NKYILVAVDYVSKWVEAIASPTN-DSKVVLKLFKTIIFPRFGI-PRVVISDGGSHFINKVFE 5529797 6899**********88888.***********************.*******************.*************99886 PP == domain 17 score: 73.2 bits; conditional E-value: 1.9e-23 rve 5 pgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkft 98 ++l++iD++ p+ + +k+g++y+lt++ddfsr ++ + lk++s++ +++ ++ ++v + + + k+++sDn+ e++ f++l++++gi +++ Chr1_1 5685754 AFDLVHIDTWgPFYVLTKDGFRYFLTIVDDFSRATWNYLLKNKSDVLHAFPTFINMVHTQYQTKLKSVRSDNAHELK---FTDLFAAHGIVAYHS 5685845 6899**********************************************************************999...*************** PP rve 99 rpyrpqdngkvErfnrtlk 117 +p +p++n++vEr+++++ Chr1_1 5685846 CPETPEQNSVVERKHQHIL 5685864 *****************96 PP == domain 18 score: 48.8 bits; conditional E-value: 7e-16 rve 44 kdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkftrpyrpqdngkvErfnrtlk 117 + +s+ +v+ + +++ve++ g ++k+++sD g efts+++++ ++e+gi h+ ++py+pq+ng++Er++r+l Chr1_1 7706772 RMKSEFISVFIAYQKLVENQLGTKIKEFQSDGGGEFTSNKLKEHFREHGIHHRISCPYTPQQNGVAERKHRHLV 7706845 5566778899999***********************************************************95 PP >> Retrotrans_gag Retrotransposon gag protein # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 38.9 0.0 7e-13 2e-12 11 96 .] 1897461 1897574 .. 1897455 1897574 .. 0.87 2 ! 52.3 0.0 4.6e-17 1.3e-16 2 92 .. 2355578 2355664 .. 2355577 2355668 .. 0.96 3 ! 53.3 0.0 2.3e-17 6.5e-17 11 96 .] 3565803 3565911 .. 3565795 3565911 .. 0.91 4 ! 37.9 0.0 1.4e-12 4.2e-12 2 92 .. 3834773 3834859 .. 3834772 3834863 .. 0.96 5 ! 21.4 0.1 2e-07 5.8e-07 23 92 .. 4283058 4283126 .. 4283053 4283129 .. 0.93 6 ! 41.0 0.0 1.6e-13 4.5e-13 11 96 .] 4520171 4520284 .. 4520163 4520284 .. 0.90 7 ! 36.3 0.2 4.5e-12 1.3e-11 2 95 .. 4574428 4574518 .. 4574427 4574519 .. 0.97 8 ! 55.8 0.0 3.8e-18 1.1e-17 1 94 [. 4589741 4589833 .. 4589741 4589835 .. 0.98 9 ! 31.9 0.0 1.1e-10 3.1e-10 1 95 [. 4606470 4606561 .. 4606470 4606562 .. 0.94 10 ! 24.2 0.0 2.6e-08 7.5e-08 27 94 .. 4645551 4645620 .. 4645529 4645622 .. 0.94 11 ! 57.8 0.0 8.9e-19 2.6e-18 1 94 [. 4744973 4745065 .. 4744973 4745067 .. 0.98 12 ! 23.7 0.0 4e-08 1.1e-07 1 94 [. 4749722 4749814 .. 4749722 4749816 .. 0.94 13 ! 61.8 0.0 5.1e-20 1.5e-19 1 94 [. 4829234 4829326 .. 4829234 4829328 .. 0.98 14 ! 64.0 0.0 1.1e-20 3.1e-20 1 94 [. 4936054 4936146 .. 4936054 4936147 .. 0.98 15 ! 58.6 0.0 5.1e-19 1.5e-18 1 94 [. 4949999 4950091 .. 4949999 4950093 .. 0.98 16 ! 43.2 0.0 3.1e-14 9e-14 1 94 [. 4975413 4975505 .. 4975413 4975507 .. 0.91 17 ! 23.3 0.0 5.1e-08 1.5e-07 2 94 .. 5094016 5094105 .. 5094015 5094107 .. 0.93 18 ! 58.3 0.0 6.1e-19 1.8e-18 1 94 [. 5154949 5155041 .. 5154949 5155043 .. 0.98 19 ! 56.1 0.1 3.1e-18 9e-18 1 94 [. 5157262 5157354 .. 5157262 5157356 .. 0.98 20 ! 58.3 0.0 6.1e-19 1.8e-18 1 94 [. 5161903 5161995 .. 5161903 5161997 .. 0.98 Alignments for each domain: == domain 1 score: 38.9 bits; conditional E-value: 7e-13 Retrotrans_gag 11 Akswlkslvarsida........sesWkdlkkafrktflpserkdqleeelrslrQgtesvreYyerfktladqlde...vvte... 83 ksw+ ++v r+i+ +++W+dl ++f+ t+lp r+ ql +++++lrQg+++++ Yy+++ktl+d+ld +v++ Chr1_1 1897461 VKSWILNSVNREIYGsilsfddaAQIWNDLHNRFHMTNLP--RTFQLVQQIQDLRQGSMNLSTYYTTLKTLRDNLDGaeaSVPChcc 1897545 589*************************************..99999999**************************75443333888 PP Retrotrans_gag 84 ................eakiekflaGLne 96 i kflaGLne Chr1_1 1897546 kkstcesqifaksnvnRGRIIKFLAGLNE 1897574 88888888888888887788888888885 PP == domain 2 score: 52.3 bits; conditional E-value: 4.6e-17 Retrotrans_gag 2 lastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqldevvteeaki 87 ++ +L+g+A++w+++l+++sid s+++l++ f+k++ p ++++++++l+s++Q +es+r++++rfk +++++ v++ea+i Chr1_1 2355578 IFIEHLTGPAHNWFSRLKPNSID---SFHQLTSSFLKHYAPLIENQTSNADLWSISQgAKESLRSFVDRFKLVVTNIT--VPDEAAI 2355659 7899*******************...****************************************************..******* PP Retrotrans_gag 88 ekfla 92 +++++ Chr1_1 2355660 VALRN 2355664 99876 PP == domain 3 score: 53.3 bits; conditional E-value: 2.3e-17 Retrotrans_gag 11 Akswlkslvarsida........sesWkdlkkafrktflpserkdqleeelrslrQgtesvreYyerfktladqldevvte...... 83 kswl + v+ +i++ s++W dl+ +f+ t+lp +++++++e +++lrQg+++++eYy+r+ktl++ +d+ ++e Chr1_1 3565803 VKSWLLNAVSPQIYRsil*mddaSDIWCDLCGRFHLTNLP-RTYNLTQE-IQDLRQGSMTLSEYYTRLKTLWNHMDS-SEEpddpcv 3565886 689*************************************.66665555.**************************5.444789*** PP Retrotrans_gag 84 ............eakiekflaGLne 96 ak +kflaGLne Chr1_1 3565887 cgksarlqlkaeRAKTVKFLAGLNE 3565911 ***********************97 PP == domain 4 score: 37.9 bits; conditional E-value: 1.4e-12 Retrotrans_gag 2 lastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqldevvteeaki 87 l+s +L+g+A++w++ l a+si s+ +l+ af+k++ ++ +++++l+++ Q ++e +r +++rfk +++++ v++ea+i Chr1_1 3834773 LFSEHLTGAALNWFSDLPANSIG---SFLELSIAFLKHYSMYIERGTTHADLWTMAQgPKEPLRTFIDRFKAVVSRIA--VPDEAAI 3834854 89*********************...****************************************************..******* PP Retrotrans_gag 88 ekfla 92 +++++ Chr1_1 3834855 SALRN 3834859 99876 PP == domain 5 score: 21.4 bits; conditional E-value: 2e-07 Retrotrans_gag 23 idasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteeakiekfla 92 + +W+d k+af+++fl+++ +++l+e+++s++Q +tes++ + rfk++ +++++ +++e ++i+ f + Chr1_1 4283058 LT---NWTDTKNAFMNHFLDDSITELLREKISSFSQdPTESLKGTWIRFKSYQRDCPQhGFQEGQLINIFFR 4283126 44...9***********************************************************9999875 PP == domain 6 score: 41.0 bits; conditional E-value: 1.6e-13 Retrotrans_gag 11 Akswlkslvarsida........sesWkdlkkafrktflpserkdqleeelrslrQgtesvreYyerfktladqlde.vvte..... 83 ksw+ ++v r+i+ ++ W+dl ++f+ t+lp r+ ql +++++lrQg+++++ Yy+++ktl+d+ld +e Chr1_1 4520171 VKSWILNSVNREIYGsilsfddaAQVWNDLHNRFHMTNLP--RTFQLVQQIQDLRQGSMNLSTYYTTLKTLWDNLDGaEASEpcqcc 4520255 589*************************************..99999999**************************87555578999 PP Retrotrans_gag 84 ................eakiekflaGLne 96 i kflaGLne Chr1_1 4520256 kksncdgqlaakskvnRGRIIKFLAGLNE 4520284 99999999999888887788889999986 PP == domain 7 score: 36.3 bits; conditional E-value: 4.5e-12 Retrotrans_gag 2 lastsLegrAkswlkslvarsida..sesWkdlkkafrktflpserkdqleeelrslrQgtesvreYyerfktladqldevvteeak 86 l+s++++g A +w++s+ + +++ + W+ +k ++ ++ + + d++ ++l +l++ te ++eY++rf+ + ++++ + e+++ Chr1_1 4574428 LVSIHFDGLANAWHQSISHSVMWEhvRHDWWSYKLLLQVRYNE--HVDDSIAKLTQLQE-TEGIEEYHARFELISTRVN--FGEDYL 4574509 7899*******************999*****************..99999999******.*******************..****** PP Retrotrans_gag 87 iekflaGLn 95 ++ +l+GL+ Chr1_1 4574510 VSFYLEGLR 4574518 ********8 PP == domain 8 score: 55.8 bits; conditional E-value: 3.8e-18 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 +l+++sL ++A+ w k++ +si+ +W+d+kkaf+++f+ ++r+++l++e++ ++Q e+++e +erfk + +q+++ ++t+++ Chr1_1 4589741 RLFPFSLGDKAHIWEKNMPHDSIT---TWDDCKKAFLSNFFFNARTARLRNEISGFSQkTGENFCEAWERFKGYTNQCPHhGFTKAS 4589824 5899********************...9******************************99*************************** PP Retrotrans_gag 86 kiekflaGL 94 +++++++G+ Chr1_1 4589825 LLSTLYRGV 4589833 ********7 PP == domain 9 score: 31.9 bits; conditional E-value: 1.1e-10 Retrotrans_gag 1 klastsLegrAkswlkslvarsida..sesWkdlkkafrktflpserkdqleeelrslrQgtesvreYyerfktladqldevvteea 85 k+a+++++++A++w++s+ ++ + Wk ++k ++++f++ + d + +el++l++ t + +Y+++f+ + ++++ +ee+ Chr1_1 4606470 KMAAIHFDSHASTWHQSFIQSGVGLevLYDWKGYVKLLKERFED-DCDDPM-AELKHLQE-TDGIIDYHQKFELIKTRVN--LSEEY 4606551 699*********************99999***************.555555.55******.*******************..***** PP Retrotrans_gag 86 kiekflaGLn 95 +++ +laGL+ Chr1_1 4606552 LVSVYLAGLR 4606561 *********8 PP == domain 10 score: 24.2 bits; conditional E-value: 2.6e-08 Retrotrans_gag 27 esWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteeakiekflaGL 94 ++Wk++k f+++f++++r+++l+ ++++++Q e ++ + rf+++ +++++ ++++ +++ f +G+ Chr1_1 4645551 TTWKEIKVSFLNNFYNDARSEELRMKISTFSQeAAEAFKAAWIRFRRYQRDCPHhGFSDVKLLGVFFRGV 4645620 59*******************************************************************7 PP == domain 11 score: 57.8 bits; conditional E-value: 8.9e-19 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 +l+++sL ++A+ w k+l + si+ +W+d+kkaf+++f++++r+++l++e++ ++Q ++es++e +erfk + ++ ++ +++e + Chr1_1 4744973 RLFPFSLGDKAHLWEKTLPQGSIT---TWDDCKKAFLAKFFSNSRTARLRNEISGFTQkQNESFCEAWERFKGYQTKYPHhGFKEVS 4745056 5899********************...9*********************************************************** PP Retrotrans_gag 86 kiekflaGL 94 +++++++G+ Chr1_1 4745057 LLNTLYRGV 4745065 ********7 PP == domain 12 score: 23.7 bits; conditional E-value: 4e-08 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslr.QgtesvreYy.erfktladqlde.vvtee 84 +l+++sL ++ + w k+l +si+ +W+d+kkaf+++f++++r+++l++e++ ++ + es++e + erfk + +q+ + ++t++ Chr1_1 4749722 RLFPFSLGDKPHIWEKNLPHDSIT---TWDDCKKAFLSKFFSNARTARLRNEISGFS*KTGESFCE-A*ERFKGYTNQCLHhGFTKA 4749804 5899********************...9****************************9988999999.5669**********9***** PP Retrotrans_gag 85 akiekflaGL 94 ++++++++G+ Chr1_1 4749805 SLLSTLYRGV 4749814 ********97 PP == domain 13 score: 61.8 bits; conditional E-value: 5.1e-20 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 +l+++sL ++A+ w k+l +si+ +W+d+kkaf+++f++++r+++l++e++ ++Q +es++e +erfk + +q+++ ++t+++ Chr1_1 4829234 RLFPFSLGDKAHIWEKNLPHDSIT---TWDDCKKAFLSKFFSNARTARLRNEISGFSQkTSESFCEAWERFKGYTNQCPHhGFTKAS 4829317 5899********************...9*********************************************************** PP Retrotrans_gag 86 kiekflaGL 94 +++++++G+ Chr1_1 4829318 LLSTLYRGV 4829326 ********7 PP == domain 14 score: 64.0 bits; conditional E-value: 1.1e-20 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 +l+++sL ++A++w ksl + si+ sW+d+kkaf+++f++++r+++l+++++ + Q ++e+++e +erfk + +q+++ ++++++ Chr1_1 4936054 RLFPFSLGDKAHQWEKSLPQGSIT---SWNDCKKAFLAKFFSNSRTARLRNDISGFIQtNNETFCEAWERFKGYKTQCPHhGFSKAS 4936137 5899********************...************************************************************ PP Retrotrans_gag 86 kiekflaGL 94 +++++++G+ Chr1_1 4936138 LLSTLYRGV 4936146 *******96 PP == domain 15 score: 58.6 bits; conditional E-value: 5.1e-19 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 +l+++sL ++A+ w k+l + si+ +W+d+kkaf+++ ++++r+++l++e++ ++Q ++es++e +erfk + +++++ +++e++ Chr1_1 4949999 RLFPFSLGDKAHPWEKTLPQGSIT---TWDDCKKAFLAKLFSNSRTARLRNEISGFTQkQNESFCEAWERFKGYQTKCPHhGFKEAS 4950082 5899********************...9*********************************************************** PP Retrotrans_gag 86 kiekflaGL 94 +++++++G+ Chr1_1 4950083 LLSTLYRGV 4950091 ********7 PP == domain 16 score: 43.2 bits; conditional E-value: 3.1e-14 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktlad.qlde.vvtee 84 +l+++sL ++A+ w k+l +si+ +W+d+kkaf+++f++++r+ +l++e++ ++Q es++e +erfk + + ++ ++t++ Chr1_1 4975413 RLFPFSLGDKAHIWEKNLPHDSIT---TWDDCKKAFLSKFFSNARTTRLRNEISGFSQkTGESFCEAWERFKGYTN*C-PHhGFTKA 4975495 5899********************...9********************************************986443.33479999 PP Retrotrans_gag 85 akiekflaGL 94 ++++++++G+ Chr1_1 4975496 SLLSTLYRGV 4975505 9999998886 PP == domain 17 score: 23.3 bits; conditional E-value: 5.1e-08 Retrotrans_gag 2 lastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqldevvteeaki 87 l++ +L+g A+ +++l+ +s+d ++++l++ f++++ ++ ++l+sl+Q ++e +r+++++ ++ ++++ ++++ a++ Chr1_1 5094016 LFVEHLKGLALDSFSRLEGNSVD---TFQNLSTLFLEQYSVLIDPCTSDADLWSLSQqPNEPLRDFLAKIRSTLAKIE-GINDVAAL 5094098 899********************...9**************************************************9.58888888 PP Retrotrans_gag 88 ekflaGL 94 +++ + L Chr1_1 5094099 SALKKAL 5094105 8776655 PP == domain 18 score: 58.3 bits; conditional E-value: 6.1e-19 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 +l+++sL ++A+ w k+l + si+ +W+d+kkaf+++f++ +r+++l++e++ ++Q ++es++e +erfk + +++++ ++++++ Chr1_1 5154949 RLFPFSLGDKAHLWEKTLPQGSIT---TWDDCKKAFLAKFFSYSRTARLRNEISGFTQkQSESFCEAWERFKGYQTKCPHhGFKQAS 5155032 5899********************...9*********************************************************** PP Retrotrans_gag 86 kiekflaGL 94 +++++++G+ Chr1_1 5155033 LLSTLYRGV 5155041 ********7 PP == domain 19 score: 56.1 bits; conditional E-value: 3.1e-18 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 +l+++sL ++A+ w k+l + si+ +W+d+kkaf+++f++ +r+++l++e++ ++Q ++es+ e +erfk + +++++ ++++++ Chr1_1 5157262 RLFPFSLGDKAHLWEKTLPQGSIT---TWDDCKKAFLAKFFSYSRTARLRNEISGFTQkQSESFYEAWERFKGYQTKCPHhGFKQAS 5157345 5899********************...9*********************************************************** PP Retrotrans_gag 86 kiekflaGL 94 +++++++G+ Chr1_1 5157346 LLSTLYRGV 5157354 ********7 PP == domain 20 score: 58.3 bits; conditional E-value: 6.1e-19 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 +l+++sL ++A+ w k+l + si+ +W+d+kkaf+++f++ +r+++l++e++ ++Q ++es++e +erfk + +++++ ++++++ Chr1_1 5161903 RLFPFSLGDKAHLWEKTLPQGSIT---TWDDCKKAFLAKFFSYSRTARLRNEISGFTQkQSESFCEAWERFKGYQTKCPHhGFKQAS 5161986 5899********************...9*********************************************************** PP Retrotrans_gag 86 kiekflaGL 94 +++++++G+ Chr1_1 5161987 LLSTLYRGV 5161995 ********7 PP >> Transposase_23 TNP1/EN/SPM transposase # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 45.6 0.0 3.7e-15 1.1e-14 25 73 .] 3534500 3534548 .. 3534499 3534548 .. 0.98 2 ! 68.9 0.0 2e-22 5.8e-22 4 72 .. 3534608 3534675 .. 3534605 3534676 .. 0.96 3 ! 93.1 1.5 5.6e-30 1.6e-29 1 73 [] 4315418 4315490 .. 4315418 4315490 .. 0.98 4 ! 71.0 0.0 4.5e-23 1.3e-22 5 72 .. 5052427 5052494 .. 5052424 5052495 .. 0.97 5 ! 85.3 0.3 1.6e-27 4.6e-27 3 73 .] 5052652 5052722 .. 5052650 5052722 .. 0.97 6 ! 86.0 0.6 9.2e-28 2.6e-27 1 72 [. 5226606 5226677 .. 5226606 5226678 .. 0.98 7 ! 62.7 0.1 1.8e-20 5.2e-20 4 71 .. 5228916 5228983 .. 5228914 5228985 .. 0.96 8 ! 73.3 0.1 8.6e-24 2.5e-23 2 71 .. 5248409 5248479 .. 5248408 5248481 .. 0.97 Alignments for each domain: == domain 1 score: 45.6 bits; conditional E-value: 3.7e-15 Transposase_23 25 cssdpdelvnriPLGpnaakVlVdvvlvkdAalWRptseietledalgs 73 cs+++ ++++riPLGpn a+V+V++v +++++lWRpt++++tl++alg+ Chr1_1 3534500 CSAEQLYKIGRIPLGPNVAAVIVKTVEDTTTSLWRPTPSVYTLGEALGN 3534548 9**********************************************95 PP == domain 2 score: 68.9 bits; conditional E-value: 2e-22 Transposase_23 4 qkkckllDwkssddvVaegrvcssdpdelvnriPLGpnaakVlVdvvlvkdAalWRptseietledalg 72 ++k+k++Dw+++d+vV+egr+cs+d++elvn++ LGp+aa V+V++vl+k A+lWRp++ ++++d+l+ Chr1_1 3534608 SVKIKIIDWNMADSVVGEGRLCSTDRHELVNNM-LGPSAAIVKVEKVLNKAAYLWRPSPGKFLMGDVLH 3534675 579*****************************9.*********************************98 PP == domain 3 score: 93.1 bits; conditional E-value: 5.6e-30 Transposase_23 1 sksqkkckllDwkssddvVaegrvcssdpdelvnriPLGpnaakVlVdvvlvkdAalWRptseietledalgs 73 sk++ kckl+D++++++vVaegr++++dp+++v+++PLG+na+kV+Vd+v+v+d ++WRp++e+e++edalg+ Chr1_1 4315418 SKENMKCKLMDITGKKRVVAEGRWATKDPKQKVHFVPLGDNAVKVWVDIVKVSDVKVWRPSDEVEIMEDALGT 4315490 68999******************************************************************96 PP == domain 4 score: 71.0 bits; conditional E-value: 4.5e-23 Transposase_23 5 kkckllDwkssddvVaegrvcssdpdelvnriPLGpnaakVlVdvvlvkdAalWRptseietledalg 72 +kckllD++s+d +Vaegr++++d+++lvn +PLGp a+kV+Vdv+l++++++W pt+++++led+l+ Chr1_1 5052427 NKCKLLDLSSNDVIVAEGRWQTKDQSALVNGLPLGPGAVKVFVDVILQPETFIWSPTMDVTYLEDCLQ 5052494 7*****************************************************************97 PP == domain 5 score: 85.3 bits; conditional E-value: 1.6e-27 Transposase_23 3 sqkkckllDwkssddvVaegrvcssdpdelvnriPLGpnaakVlVdvvlvkdAalWRptseietledalgs 73 + +kckl+D++++++vV+ gr++s dpd++v++++L +naa+V+Vdvv+v+dAa+WRp++eie+++d+lgs Chr1_1 5052652 AYQKCKLMDISGKKRVVGVGRMHSIDPDQKVHHVRLAENAARVWVDVVNVDDAAVWRPSDEIEYMRDSLGS 5052722 678******************************************************************96 PP == domain 6 score: 86.0 bits; conditional E-value: 9.2e-28 Transposase_23 1 sksqkkckllDwkssddvVaegrvcssdpdelvnriPLGpnaakVlVdvvlvkdAalWRptseietledalg 72 sk++kkckl+D++++++vVaegr++++dp+++v+++PLG na+kV++d+v+v++ ++WRp++eie+++d+l+ Chr1_1 5226606 SKENKKCKLMDLTGKNKVVAEGRWATNDPAHKVHHTPLGFNAVKVWIDIVKVGNVKVWRPSDEIEIMKDSLN 5226677 6899******************************************************************98 PP == domain 7 score: 62.7 bits; conditional E-value: 1.8e-20 Transposase_23 4 qkkckllDwkssddvVaegrvcssdpdelvnriPLGpnaakVlVdvvlvkdAalWRptseietledal 71 +kckllD++s+d Vae r++++d+d+lvn iPL pna+k++Vdvv ++d+++W pt ++++led+l Chr1_1 5228916 MNKCKLLDLSSDDVDVAERRWQTQDRDTLVNGIPLRPNAVKIFVDVVHQPDTFIWTPTIDVTYLEDCL 5228983 57****************************************************************98 PP == domain 8 score: 73.3 bits; conditional E-value: 8.6e-24 Transposase_23 2 ksqkkckllDwkssdd.vVaegrvcssdpdelvnriPLGpnaakVlVdvvlvkdAalWRptseietledal 71 +sq+kc+l+Dw+++++ ++aegr+++sdpd+lvn+++LGp+++kVlVd++ v+dA+lWR +++t+e a+ Chr1_1 5248409 RSQPKCILIDWTGNGNaIIAEGRIITSDPDDLVNDCRLGPSDVKVLVDAATVPDAYLWRLELNMCTIESAI 5248479 789*************9**************************************************9986 PP >> MuDR MuDR family transposase # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 51.5 0.5 5.5e-17 1.6e-16 2 67 .] 930608 930673 .. 930607 930673 .. 0.98 2 ! 50.3 0.5 1.3e-16 3.8e-16 4 67 .] 1443603 1443671 .. 1443600 1443671 .. 0.92 3 ! 42.3 0.1 4.3e-14 1.2e-13 3 67 .] 1971011 1971080 .. 1971009 1971080 .. 0.95 4 ! 50.1 1.1 1.6e-16 4.5e-16 2 67 .] 3002227 3002292 .. 3002226 3002292 .. 0.98 5 ! 23.5 0.2 3.2e-08 9.1e-08 5 51 .. 3917993 3918039 .. 3917990 3918039 .. 0.97 6 ! 52.5 0.1 2.7e-17 7.8e-17 3 67 .] 3962843 3962907 .. 3962841 3962907 .. 0.96 7 ! 48.3 0.5 5.5e-16 1.6e-15 2 67 .] 4391949 4392014 .. 4391948 4392014 .. 0.98 8 ! 56.4 0.1 1.7e-18 4.8e-18 2 67 .] 4422021 4422086 .. 4422020 4422086 .. 0.98 9 ! 22.6 0.2 5.7e-08 1.7e-07 3 51 .. 5335695 5335748 .. 5335693 5335750 .. 0.91 10 ! 41.4 3.1 7.8e-14 2.3e-13 1 67 [] 7947197 7947263 .. 7947197 7947263 .. 0.96 11 ! 45.1 0.2 5.4e-15 1.6e-14 3 67 .] 9825310 9825379 .. 9825308 9825379 .. 0.95 Alignments for each domain: == domain 1 score: 51.5 bits; conditional E-value: 5.5e-17 MuDR 2 pelevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCkkegCpWrvraskdkdsktfki 67 +el vG+vFk+k++++ ++ +a+++rf+f+ +s+k+ ++++C +e+CpWrv+ k +ds+ ++i Chr1_1 930608 DELFVGRVFKNKQDCNVKLAVHALNRRFHFRRDRSCKKLMTLTCISETCPWRVYIVKLEDSDNYQI 930673 789*************************************************************98 PP == domain 2 score: 50.3 bits; conditional E-value: 1.3e-16 MuDR 4 levGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCk.....kegCpWrvraskdkdsktfki 67 l+++++F+s ++fk+av +y++k+r+++++++s++ ++ akC +CpWrv +s++k++++++i Chr1_1 1443603 LAIEKTFNSPDDFKRAVLMYSLKTRYNINFYRSESLMVAAKCCyvnelGVNCPWRVLCSYEKKKHKMQI 1443671 7899***************************************97544445****************98 PP == domain 3 score: 42.3 bits; conditional E-value: 4.3e-14 MuDR 3 elevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCk...keg..CpWrvraskdkdsktfki 67 l+++++++s e+fk a + ++k+r+++k +ks+ + akC+ +eg CpWrvr+s++k++++++i Chr1_1 1971011 LLALEKTYNSPEDFKLAPLMSSLKTRYDIKLYKSEAMVVAAKCVyvsDEGveCPWRVRCSYEKRKHKMQI 1971080 57899****************************************9877799*****************8 PP == domain 4 score: 50.1 bits; conditional E-value: 1.6e-16 MuDR 2 pelevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCkkegCpWrvraskdkdsktfki 67 ++l vG+vFk+++ ++++++ aik++f fk++ks++++++++C++e+CpW++ a+++kds++fki Chr1_1 3002227 ETLFVGSVFKNRKVLQQTMSLQAIKQCFCFKQPKSCPKTLKMVCVDETCPWQLTARVVKDSESFKI 3002292 5799************************************************************98 PP == domain 5 score: 23.5 bits; conditional E-value: 3.2e-08 MuDR 5 evGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCkkegCp 51 ++G+vFk+++ +++++ aik+ f +k+++s++tr++++C++++Cp Chr1_1 3917993 RLGSVFKNRKVIQQTMSYLAIKQSFCYKQPRSCPTRLEMVCVDDTCP 3918039 68********************************************8 PP == domain 6 score: 52.5 bits; conditional E-value: 2.7e-17 MuDR 3 elevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCkkegCpWrvraskdkdsktfki 67 l +G+ Fk+k+e+ +++++a+k+ fef+++ksd try+++C +e+C Wr+ra++ +s++++i Chr1_1 3962843 SLFIGKFFKDKDEMVFTLRMFAVKHSFEFHTVKSDLTRYVLHCIDENCSWRLRATRAGGSESYVI 3962907 689********************************************************999987 PP == domain 7 score: 48.3 bits; conditional E-value: 5.5e-16 MuDR 2 pelevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCkkegCpWrvraskdkdsktfki 67 +el vG+vFk+k++++ ++ +a+++rf f+ +s+k+ +++C +e+CpWrv+ k +ds+ ++i Chr1_1 4391949 DELFVGRVFKNKQDCNVKLAVHALNRRFYFRRDRSCKKLTTLTCISETCPWRVYIVKLEDSDNYQI 4392014 789*************************************************************98 PP == domain 8 score: 56.4 bits; conditional E-value: 1.7e-18 MuDR 2 pelevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCkkegCpWrvraskdkdsktfki 67 +++++G++Fkske++ ++++ai +f+f + ks ++ + a+C++++CpWrv+a+k +ds++f++ Chr1_1 4422021 DDIYIGRIFKSKEDCATKLAIHAIHWKFHFIYAKSGPNIVAAVCVSDTCPWRVYATKLPDSDWFEV 4422086 789*************************************************************98 PP == domain 9 score: 22.6 bits; conditional E-value: 5.7e-08 MuDR 3 elevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCkkeg.....Cp 51 +++G+v++sk+++++ ++++aik++f fk+ +++++ + +C++e+ Cp Chr1_1 5335695 GIYKGRVYASKQDCQISLAIHAIKEQFYFKQSRTKRHYFLITCADETvsge*CP 5335748 799****************************************99876666665 PP == domain 10 score: 41.4 bits; conditional E-value: 7.8e-14 MuDR 1 dpelevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCkkegCpWrvraskdkdsktfki 67 d+el+vG +Fk+++e+k++v++++i+ r ++ v++++k++y+++C +++C+W + a++ ++++ ++i Chr1_1 7947197 DHELRVGLCFKDRDELKKTVDWCSIRGRQKCVVRETEKDKYTFECIRWKCKWSLQAARIEEHGLVEI 7947263 589*******************************************************999988877 PP == domain 11 score: 45.1 bits; conditional E-value: 5.4e-15 MuDR 3 elevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCk...keg..CpWrvraskdkdsktfki 67 l+++++++s e+fk a+ +y++k+r+++k ++s+ + akC+ +eg Cp+rvr+s++k++++++i Chr1_1 9825310 LLALEKTYNSPEDFKLALLMYSLKTRYDIKLYNSEAMVVAAKCVyvsDEGveCPCRVRCSYEKRKHKMQI 9825379 57899****************************************9877799*****************8 PP >> MULE MULE transposase domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 38.6 0.0 8.9e-13 2.6e-12 3 76 .. 930815 930887 .. 930813 930897 .. 0.92 2 ! 22.0 0.0 1.4e-07 4e-07 5 66 .. 1443814 1443876 .. 1443810 1443882 .. 0.85 3 ! 56.9 0.0 1.8e-18 5.2e-18 1 92 [. 1561351 1561443 .. 1561351 1561444 .. 0.94 4 ! 58.5 0.0 5.6e-19 1.6e-18 2 92 .. 3002433 3002522 .. 3002432 3002523 .. 0.94 5 ! 27.4 0.0 2.9e-09 8.4e-09 5 85 .. 7947402 7947486 .. 7947397 7947493 .. 0.85 6 ! 54.0 0.0 1.4e-17 4.2e-17 4 90 .. 9544021 9544106 .. 9544018 9544109 .. 0.93 7 ! 58.9 0.0 4.3e-19 1.2e-18 2 92 .. 10032883 10032972 .. 10032882 10032973 .. 0.93 Alignments for each domain: == domain 1 score: 38.6 bits; conditional E-value: 8.9e-13 MULE 3 yktgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevf 76 + +gky g ll+a+ g da+ ++fp+af++v+sE+ + w+wf++ l a+ + ++++++D++++++ +++v+ Chr1_1 930815 HLKGKYGGCLLTAS---GQDANFQVFPIAFGVVDSENDDAWEWFFRVLSTAIPDgdNLTFVSDRHSSIYTGLRRVI 930887 889*********77...***********************************9559***************99997 PP == domain 2 score: 22.0 bits; conditional E-value: 1.4e-07 MULE 5 tgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkaln...g.pvvvitDgdk 66 + + kg+ll +vg d+d++++pla+a+ve E+ ++w wfl++l + l + ++ i+D ++ Chr1_1 1443814 KWDIKGHLLA---AVGRDGDNRIVPLAWAVVEIENDDNWDWFLKKLSESLGlceMvNLALISDKQS 1443876 5567888888...66*******************************99998775489999999875 PP == domain 3 score: 56.9 bits; conditional E-value: 1.8e-18 MULE 1 gtyktgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkaln...g.pvvvitDgdkglakaikevfpdarhrlClwHilrn 91 gt+ +g+ kg+ll+ +vg d +d ++++a+a+v E++ +w+wf++ l ++l+ g + +D++kgl++aik+v+p a+hr+C++Hi++n Chr1_1 1561351 GTFLKGRMKGQLLT---AVGRDPNDAMYIIAWAIVPVENKVYWQWFMKLLGEDLRlelGnGLALSSDQQKGLIYAIKNVLPYAEHRMCARHIFAN 1561442 69999*********...66*****************************99999988764699********************************9 PP MULE 92 l 92 l Chr1_1 1561443 L 1561443 7 PP == domain 4 score: 58.5 bits; conditional E-value: 5.6e-19 MULE 2 tyktgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevfpdarhrlClwHilrnl 92 t g+ykg ll+ +++ d++ ++fp+af++v+ E+ sw wf+e+l + + + +++++D++++++k ++ v+p a+h C++H+ rnl Chr1_1 3002433 TQLVGPYKGCLLI---ACAQDGNFQIFPIAFGVVDGETDASWAWFFEKLAEIVPDsdDLMIVSDRHSSIYKGLSVVYPRAHHGACAVHLERNL 3002522 5567999*99999...55***********************************967899*********************************8 PP == domain 5 score: 27.4 bits; conditional E-value: 2.9e-09 MULE 5 tgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevf.....pdarhrlCl 85 +gky ++l++ ++gv add fplafa++ + s+++w+wfl ++++ +++ ++ i+ ++ + + i+e p+a+h +Cl Chr1_1 7947402 KGKYPMKLMI---ASGVEADDCYFPLAFAFTTEVSSDTWRWFLSGIREKVTQrkDICLISRPHPDILDVINEPGsqwqePWAYHMFCL 7947486 4666666666...55********************************888855899****************5555677889999986 PP == domain 6 score: 54.0 bits; conditional E-value: 1.4e-17 MULE 4 ktgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevfpdarhrlClwHilr 90 +kyk +l+ +vgv+++ + ++l+++l+ + ++ ++ w+++ ++ a+ g p+v++tD+++++++ai+ v+p++rh++ClwH+l Chr1_1 9544021 FVSKYKVPLVL---FVGVNHHVQPVLLGCGLLADDTVYTYVWLMQSWLVAMGGqkPKVMLTDQNNAIKAAIAAVLPETRHCYCLWHVLD 9544106 55789999999...99***********************************9679********************************86 PP == domain 7 score: 58.9 bits; conditional E-value: 4.3e-19 MULE 2 tyktgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevfpdarhrlClwHilrnl 92 t ++ y+ +l+ +vg+++++++++l+++l+ ++s e++ w+++ ++ ++ g p+++it ++k+++ a++evfp a+hrl l H+l n+ Chr1_1 10032883 TCLSNAYELPLVA---FVGINHHGDTILLGCGLLADQSFETYVWLFRAWLTCMLGrpPQIFITEQCKAMRTAVSEVFPRAHHRLSLTHVLHNI 10032972 5667788777777...99***********************************9779*********************************997 PP >> Plant_tran Plant transposon protein # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 316.0 0.0 9.4e-98 2.7e-97 1 210 [. 5348070 5348278 .. 5348070 5348279 .. 0.97 Alignments for each domain: == domain 1 score: 316.0 bits; conditional E-value: 9.4e-98 Plant_tran 1 ivevfaarylraptaedverllkigesrgfpgmlgsldcmhwkwkncptawkgqytrgdkksptiileavasydlw.iwhaffglpgsnnd 90 i+++f+++ylr+pt +d+ rll+ige rgfpgm+gs+dcmhw+wkncptawkgqytrg+ k pti+leavas+d iwhaffg p ++nd Chr1_1 5348070 IINLFGDEYLRRPTRDDLIRLLHIGEQRGFPGMIGSIDCMHWEWKNCPTAWKGQYTRGSGK-PTIVLEAVASQD-L*IWHAFFGPPCTLND 5348158 789********************************************************99.************.5559************ PP Plant_tran 91 invldrsplfadilkGeaprvkyvvnekqynlayyladGiypk.watlvksirlpqlekkklfaqkqeaarkdverafGvlqarfkivakp 180 invldrsp+f+dil+G+ap+vkyvvn+k+ynlayyl+dGiypk t+++si q +k+ lfa++qea+rkdverafGvlqarf+i+++p Chr1_1 5348159 INVLDRSPVFDDILQGRAPKVKYVVNGKDYNLAYYLTDGIYPK*A-TFIQSISILQGNKASLFATTQEACRKDVERAFGVLQARFAIIKHP 5348248 ******************************************555.9******************************************** PP Plant_tran 181 arlwekedlakimkaciilhnmivederdl 210 a +k ++ +im+aciilhnmived+rd Chr1_1 5348249 ALFHDKVKIGNIMRACIILHNMIVEDKRDG 5348278 ****************************96 PP >> Peptidase_C48 Ulp1 protease family, C-terminal catalytic domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 21.4 0.0 1.6e-07 4.5e-07 159 201 .. 1163602 1163640 .. 1163598 1163651 .. 0.88 2 ! 194.4 0.3 1.9e-60 5.4e-60 1 214 [. 3227087 3227298 .. 3227087 3227300 .. 0.98 3 ! 48.8 0.0 6.9e-16 2e-15 10 138 .. 4226202 4226324 .. 4226198 4226355 .. 0.87 Alignments for each domain: == domain 1 score: 21.4 bits; conditional E-value: 1.6e-07 -------------HHHHHHH-------S---H....HHHHHHH CS Peptidase_C48 159 kvpqqknsgDCGiyvlkfiellaegppqessvtltekdvdsfr 201 +vpqqkn++DCG++ l+fi++++e++pq+ t +d++++r Chr1_1 1163602 QVPQQKNDFDCGLFLLFFIRRFIEEAPQRL----TLQDLKMVR 1163640 69***************************5....568888776 PP == domain 2 score: 194.4 bits; conditional E-value: 1.9e-60 ----HHHHHHHHHH.......HHHTSTTEEE--THHHHHHH.....................H------TTCCHHCS..-GGG-SEEE CS Peptidase_C48 1 ewlndtvidfylkllaerlesseekaervhflntffvskLtkkvkdfkknkskkkfkeskk.kdlyngvrrwtrkknkedlfdkdiiy 87 ++l+++++++++k+ +++ a+r+ +l+ +++++Ltk+v dfkk+ +k+ fk++k +d++ngv+ ++++ n+++++d+d++y Chr1_1 3227087 QHLEMMAMLMWHKNG------EQMIANRCIVLDMMLTHLLTKRVGDFKKCINKNGFKWGKLlSDIANGVHINREP-NMKWMKDVDVVY 3227167 69999*********9......9*****************************************************.7*********** PP --EET.TTEEEB--EETTTTEE-EE-TT-----....HHHHHHHHHHHHHHHHHTTS------.......EEEEE------------- CS Peptidase_C48 88 iPinedgkHWvlliinlpkktililDSlislhk...vkkenrpidnlkpyLleealnkkskql.dltpfeierltkvpqqknsgDCGi 171 +P+n+++ HWv+l inl+++ i+++D lis+++ vk++++pi+++++yL++ ++++ ++ +++pfe++r+ +v+q++++gDCG+ Chr1_1 3227168 APMNWKSEHWVALGINLNERLITVYDALISHTResaVKARMTPICEMMSYLVRAMCQDVLISPySVEPFEYVRCPTVAQNPTTGDCGP 3227255 ***********************************************************9999************************* PP HHHHHHH-------S---H....HHHHHHHHHHH...HHHHTT CS Peptidase_C48 172 yvlkfiellaegppqessvtltekdvdsfrkklaldiyeilrs 214 y++kf+ella g+p+++ +t++e+d ++r+k+++diye+ ++ Chr1_1 3227256 YTMKFLELLAFGHPFSDLTTIREADYVFYRQKYSVDIYEHGKR 3227298 *****************999*******************9875 PP == domain 3 score: 48.8 bits; conditional E-value: 6.9e-16 HHHHH.......HHHTSTTEEE--THHHHHHH....................H------TTCCHHCS..-GGG-SEEE--EET.TTEE CS Peptidase_C48 10 fylkllaerlesseekaervhflntffvskLtkkvkdfkknkskkkfkeskkkdlyngvrrwtrkknkedlfdkdiiyiPinedgkHW 97 +++++++ l+ +++k r +fl + f+s L +++++f + +k+ f +s+ ++v r+k +++++d+iy P++ + HW Chr1_1 4226202 LLVRFIQ--LRLDKNKPLRFDFLPSSFLSELRRQYNKFVGAADKSAFYFSTL----ARVPFMVRPK---WFAEIDVIYCPMQVERQHW 4226280 6678884..66699****************************9988888886....5665556666...*************99**** PP EB--EETTTTEE-EE-TT-----....HHHHHHHHHHHHHHHHH CS Peptidase_C48 98 vlliinlpkktililDSlislhk...vkkenrpidnlkpyLlee 138 v+l+i+l+k+ +++lD++++ k v+k+++ i+ ++pyL+++ Chr1_1 4226281 VGLVIDLKKWGVTVLDCNRDVLKdeqVEKYVEHITIMLPYLIRK 4226324 *****************************************987 PP >> Transposase_24 Plant transposase (Ptta/En/Spm family) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 39.3 0.0 5.7e-13 1.6e-12 2 51 .. 4317391 4317444 .. 4317390 4317456 .. 0.93 2 ! 60.5 0.0 1.7e-19 4.9e-19 50 121 .. 4317486 4317563 .. 4317485 4317565 .. 0.96 3 ! 89.8 0.1 1.5e-28 4.4e-28 50 139 .. 4691353 4691475 .. 4691351 4691476 .. 0.98 Alignments for each domain: == domain 1 score: 39.3 bits; conditional E-value: 5.7e-13 Transposase_24 2 pevwktLvayWdtekakkrseknkkar....nglgihkHtsgsksfaqirkele 51 +++w t++ayWd+e+a+krs +++kar ng+g+h H sg+k +++i++el Chr1_1 4317391 ETLWGTMCAYWDKEEAQKRSRTYSKARlsdrNGIGPHVHYSGPKFYQEIQDELV 4317444 799************************************************986 PP == domain 2 score: 60.5 bits; conditional E-value: 1.7e-19 Transposase_24 50 leeekgktpdraevfieTHtkkDGtyvdekaeeiaekvkerlqereseseseasaesdgssr......edkneiflqv 121 +ee++g++++ +evfi+THtk+DG++vd+kae+ia+++++++++r+s +e+ asa+sdgssr +d++ ifl+v Chr1_1 4317486 QEEKLGRPVHLGEVFIQTHTKSDGSFVDQKAEKIAQTYEQNVRDRLSALEAAASAVSDGSSRppeltlDDYTAIFLEV 4317563 46777**********************************************************************997 PP == domain 3 score: 89.8 bits; conditional E-value: 1.5e-28 Transposase_24 50 leeekgktpdraevfieTHtkkDGtyvdekaeeiaekvkerlqereseseseasaesdgssr......edkneif............ 118 +ee++gkt+++++vfi+THtk+DGtyvd+kae+iae +k++lq r+se+e+easa+sdg+sr ed+++if Chr1_1 4691353 QEEQLGKTVNIGDVFIKTHTKPDGTYVDRKAEKIAELYKKNLQLRQSEFEAEASAVSDGTSRareltaEDCTTIFlqvtfyvsqfsv 4691439 57888********************************************************************************** PP Transposase_24 119 ...............lqvvgkdkkgrvyglGslqee 139 lq++++d++g +yg+Gsl+e+ Chr1_1 4691440 felsfsfsnlsfyhtLQSTERDSRGVPYGVGSLKES 4691475 *********************************997 PP >> hATC hAT family dimerisation domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 69.7 0.0 1.2e-22 3.5e-22 1 84 [] 2129213 2129293 .. 2129213 2129293 .. 0.98 2 ! 72.3 0.2 1.9e-23 5.5e-23 17 84 .] 4691981 4692048 .. 4691970 4692048 .. 0.96 Alignments for each domain: == domain 1 score: 69.7 bits; conditional E-value: 1.2e-22 hATC 1 eldeyleelpvlrrneefdvlewwkqnssryPnlsklardvLsipvssaasErsFstlgkvllesrnsleplnveallcieqwl 84 el++yl+e +++++ dvl+wwk+ns+ryP ls +ard L+++++saa+E F ++g+++++++ ++ +++ + +ci++w+ Chr1_1 2129213 ELTQYLSE-SIVPMQ--TDVLDWWKVNSGRYPRLSNMARDFLAVQATSAAPEEIFCGKGEEIDKQKYCMPHDSTQSVICIRSWI 2129293 89******.*****9..7*****************************************************************7 PP == domain 2 score: 72.3 bits; conditional E-value: 1.9e-23 hATC 17 efdvlewwkqnssryPnlsklardvLsipvssaasErsFstlgkvllesrnsleplnveallcieqwl 84 +++vl++wk+ns+r+ ls +a dvLsip++++asE+sFs++ +vl+++r++l p++v+allc+++wl Chr1_1 4691981 NMSVLQYWKDNSHRFGALSYMAYDVLSIPITTVASESSFSIGSRVLNKYRSRLLPKHVQALLCTRSWL 4692048 689****************************************************************7 PP >> RVP_2 Retroviral aspartyl protease # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 41.1 0.0 1.6e-13 4.7e-13 23 129 .. 5191629 5191737 .. 5191624 5191741 .. 0.91 Alignments for each domain: == domain 1 score: 41.1 bits; conditional E-value: 1.6e-13 RVP_2 23 lGtflvnsiPatvLfDsGashsfiskafvkkhglkveelktpllvssPggdikatk..rspsvsieiqgvdfladlilleskdlDviLGldWlak 115 lGt+lv P+ vLf+ Ga+ sf+s ++k g e+ ++ +lv++ g++ ++ + v + iq+ + a+l+ + + ++vi+G+dWl+ Chr1_1 5191629 LGTLLVSGNPTHVLFNLGATNSFVSSDVADKFGHGYEKREVNVLVHTAGNQPPLQTrvVLVGVPVVIQDTILQANLLGMPMERFEVIFGMDWLSG 5191723 8*************************************************9765550055678999***************************** PP RVP_2 116 hkgvidCaertvtL 129 +++ +dC + v++ Chr1_1 5191724 YHAHLDCRRSRVVF 5191737 *******9988875 PP >> RnaseH RNase H # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 22.1 0.0 1.5e-07 4.4e-07 3 127 .. 2356604 2356726 .. 2356602 2356730 .. 0.74 Alignments for each domain: == domain 1 score: 22.1 bits; conditional E-value: 1.5e-07 -EEEEEE---BT----SB-EE.EE.BTTB..--EE---.S-HHHHHHHHHHHHHHC.CT.CH.TCECEEES-CCHHHHHHSTT-----.B----- CS RnaseH 3 avvvYtDGsclknskegragy.vv.ekgk..nfskplp.eqtnqraEllAliealk.al.sq.ekvniytDSkyvvkgilkelerkkeplksesk 89 ++ +Y+DGs++ + +++g+ +v ++++ + s++l+ +tn++aE++ li++l+ a+ q +++ +tDS+ +++++ + + k+e+ Chr1_1 2356604 EWSLYVDGSSS--ARGSGIGIrLVsPTAEvlEQSFRLRfVATNNVAEYEVLIAGLRlAAgMQiTTIHAFTDSQLIAGQLSG-----EYEAKNEKM 2356691 6789*****65..66679999877444445799999999*****************876533588889*********6666.....333333333 PP B-TTHHHHHHCT.TSEEEEEE-------.HHHHHHHHHH CS RnaseH 90 piknelaellak.keavqlkhvkghkgikgNelaDrlak 127 + + ++ +l+ k e+++l+ ++ N+ aD la Chr1_1 2356692 DAYLKIVQLMTKdFENFKLSKIPRG----DNAPADALAA 2356726 4556799999773566999999976....7777887775 PP >> Transposase_mut Transposase, Mutator family [No individual domains that satisfy reporting thresholds (although complete target did)] Internal pipeline statistics summary: ------------------------------------- Query sequence(s): 1 (10142557 residues) Target model(s): 46 (7833 nodes) Passed MSV filter: 46 (1); expected 46.0 (1) Passed bias filter: 46 (1); expected 46.0 (1) Passed Vit filter: 46 (1); expected 46.0 (1) Passed Fwd filter: 46 (1); expected 46.0 (1) Initial search space (Z): 46 [actual number of targets] Domain search space (domZ): 16 [number of targets reported over threshold] # CPU time: 2071.17u 1.96s 00:34:33.13 Elapsed: 00:34:37.57 # Mc/sec: 38.24 // Query: Chr1_2 [L=10142557] Description: CHROMOSOME dumped from ADB: Jun/20/09 14:53; last updated: 2009-02-02 Scores for complete sequence (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Model Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 0 3619.2 48.6 5.8e-187 613.5 0.0 13.4 11 ATHILA ATHILA ORF-1 family 0 2607.3 58.1 8.6e-103 334.3 0.5 16.4 15 RVT_2 Reverse transcriptase (RNA-dependent DNA pol 0 1101.3 31.4 1.5e-30 97.6 0.0 24.5 16 rve Integrase core domain 5.2e-248 809.0 9.8 3.1e-95 309.3 0.0 5.5 4 Transposase_21 Transposase family tnp2 1.1e-225 735.6 24.6 5.2e-42 135.4 0.0 14.0 9 RVT_1 Reverse transcriptase (RNA-dependent DNA pol 1.5e-211 677.2 79.7 7.8e-20 62.7 0.1 28.9 16 Retrotrans_gag Retrotransposon gag protein 3.8e-204 653.5 23.2 4.1e-22 70.0 0.0 16.2 12 MULE MULE transposase domain 3.5e-188 608.6 41.5 8.8e-43 137.4 0.7 14.4 8 Transposase_24 Plant transposase (Ptta/En/Spm family) 3.6e-120 383.5 58.4 2.9e-17 53.9 0.3 11.0 10 MuDR MuDR family transposase 4e-118 377.2 23.5 5.6e-28 88.3 0.4 7.0 5 hATC hAT family dimerisation domain 7.6e-111 353.7 15.8 4.5e-27 85.3 0.1 7.6 6 Transposase_23 TNP1/EN/SPM transposase 1.3e-70 229.2 19.6 9.4e-29 92.3 0.0 6.3 4 Peptidase_C48 Ulp1 protease family, C-terminal catalytic d 1.8e-48 156.5 2.0 1e-47 154.0 0.1 2.2 1 Plant_tran Plant transposon protein 3.8e-41 132.6 7.9 4.3e-08 23.8 0.0 10.8 1 Transposase_mut Transposase, Mutator family 1.9e-23 75.0 0.0 2e-05 16.8 0.0 7.5 0 RnaseH RNase H 2.6e-23 74.3 0.1 7.4e-10 30.7 0.0 6.3 1 RVP_2 Retroviral aspartyl protease Domain annotation for each model (and alignments): >> ATHILA ATHILA ORF-1 family # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 613.5 0.0 2e-187 5.8e-187 37 458 .] 4747749 4748168 .. 4747724 4748168 .. 0.97 2 ! 303.8 0.9 1.9e-93 5.4e-93 13 239 .. 4750948 4751174 .. 4750935 4751176 .. 0.95 3 ! 220.5 1.0 3.4e-68 9.9e-68 1 164 [. 4773455 4773618 .. 4773455 4773621 .. 0.99 4 ! 40.0 1.4 2e-13 5.6e-13 1 61 [. 4778740 4778796 .. 4778740 4778798 .. 0.96 5 ! 353.3 0.1 1.7e-108 5e-108 1 456 [. 4790147 4790591 .. 4790147 4790593 .. 0.94 6 ! 394.2 0.1 6.7e-121 1.9e-120 1 276 [. 4796963 4797248 .. 4796963 4797250 .. 0.98 7 ! 282.3 0.0 5.9e-87 1.7e-86 77 272 .. 4819344 4819539 .. 4819340 4819544 .. 0.97 8 ! 207.8 0.4 2.5e-64 7.1e-64 1 165 [. 4831361 4831525 .. 4831361 4831528 .. 0.98 9 ! 261.6 0.6 1.2e-80 3.4e-80 1 201 [. 4951146 4951348 .. 4951146 4951350 .. 0.99 10 ! 594.3 0.0 1.4e-181 4e-181 1 457 [. 5166883 5167337 .. 5166883 5167338 .. 0.98 11 ! 354.2 0.1 9.5e-109 2.7e-108 122 457 .. 5400868 5401241 .. 5400867 5401242 .. 0.89 Alignments for each domain: == domain 1 score: 613.5 bits; conditional E-value: 2e-187 ATHILA 37 tkelkkkdeltpeeYykllkelefegTryphketlaeLglledvdylfkkakletfmsypyeaykeetveflstlelelyqesedrekeeeglGy 131 + ++k+d l+ eeY++l k +ef++Tryp+++tla+Lglledv++l+++++l+t+m+ypy+ay++et++flstl +elyq+++++e+++eglG+ Chr1_2 4747749 ARGKNKPDVLPGEEYIRLCKLNEFCSTRYPCSTTLAQLGLLEDVQHLYQSCHLHTLMAYPYVAYEDETIQFLSTLLVELYQGMTSDELDCEGLGF 4747843 44578999*************************************************************************************** PP ATHILA 132 itFkvkgveyslsikqleeifgFpskkgikpkfdkeeLksLwatiasklplnsarsKsnqirspvirylqrsiAnvlfsrestgtvtnselelld 226 ++F+v+g+ey+lsik+le +fgFps+ g+kpk+d+eeLk+Lw+ti+s++plns+rsKsnqirsp+iry+qr+iAnvl+sre+tgtvtns++e+++ Chr1_2 4747844 LRFSVYGHEYRLSIKRLEGLFGFPSGMGTKPKYDREELKDLWITIGSSVPLNSSRSKSNQIRSPIIRYFQRAIANVLYSREITGTVTNSDMEMIA 4747938 *********************************************************************************************** PP ATHILA 227 qaLkeiLrrtkdgrklkgdlndtslsvvLldhLlsYreyaatikkk.lrGslcvGGvvTpiliavgvplsskglepraidldylkrkeflelkas 320 +aLk++Lr+tk+g++l+g+ ndt+ sv+Ll+hL++Y+++a+++++k +rG lc+GGv+Tpilia+gv ++ +glepra+d+++l+++efle++++ Chr1_2 4747939 MALKGTLRQTKNGMSLQGEINDTPFSVLLLIHLCGYKSWAVSNNHKrARGVLCIGGVLTPILIACGVSITFNGLEPRAMDIEHLRHCEFLEFAMV 4748033 *********************************************************************************************** PP ATHILA 321 ddayrykfehselkksellLpskevTtieekenIdfkPskeil...sappedeaelteeaeeedvdeededeeaelekfdtsqyhFeehappare 412 +d++r++fehs++k++++lLps+ev +++e++nI+f+P+ +l +app de++l ee +e d++ded+ +e fdts+yhF eh+ppare Chr1_2 4748034 NDLHRFRFEHSTDKRASILLPSPEVIRLIEGDNINFRPEVGRLyyeNAPPLDEDDLLEEVAE---DGMDEDRAVE---FDTSMYHFGEHVPPARE 4748122 **************************************************************...**********...***************** PP ATHILA 413 skslsevhkklsklqkwckkqdkllkkllkkikklkkklkssssqt 458 skslse+h+++sklqkwck qdkll+k++k+ik+l++kl++sss+t Chr1_2 4748123 SKSLSEAHRNNSKLQKWCKNQDKLLAKCFKTIKFLTDKLSCSSSTT 4748168 *******************************************986 PP == domain 2 score: 303.8 bits; conditional E-value: 1.9e-93 ATHILA 13 veseeevieEdveveyepepvrrrtkelkkkdeltpeeYykllkelefegTryphk.etlae.Lglledvdylfkkakletfmsypyeaykeetv 105 + s++e+i+Ed+e+eyepe++r++tk+l+k+de+t+eeY++++++++f+gTryp++ ++ Lglledv++lf+k++let+msypy a ke+t+ Chr1_2 4750948 CASRYEMIDEDIETEYEPESWRKETKLLNKPDEVTVEEYIRFFEMNDFWGTRYPCY*TL--T*LGLLEDVQHLFEKCHLETLMSYPYAACKEKTI 4751040 4467***************************************************8875..66689***************************** PP ATHILA 106 eflstlelelyqesedrekeeeglGyitFkvkgveyslsikqleeifgFpskkgikpkfdkeeLksLwatiasklplnsarsKsnqirspviryl 200 eflstl++e+y++++d e++++glG++tF+v ++ y+lsik+lee fgFps+kg+kp+fd+eeLk+Lwati+++lplnsarsKsnqirsp iry+ Chr1_2 4751041 EFLSTLQVEMYEDLTDFELDTMGLGFLTFSVAEQWYQLSIKKLEEQFGFPSGKGTKPRFDREELKNLWATIGNNLPLNSARSKSNQIRSPGIRYF 4751135 *********************************************************************************************** PP ATHILA 201 qrsiAnvlfsrestgtvtnselelldqaLkeiLrrtkdg 239 +rs+A+v++srestgtv+n+++e++d+aL+ iLr ++ Chr1_2 4751136 HRSVAKVFYSRESTGTVSNTDMEMIDSALTWILRLQRER 4751174 *********************************987765 PP == domain 3 score: 220.5 bits; conditional E-value: 3.4e-68 ATHILA 1 trreeiargkrvveseeevieEdveveyepepvrrrtkelkkkdeltpeeYykllkelefegTryphketlaeLglledvdylfkkakletfmsy 95 +rr+eiargkr++ s++++i+Ed+e+eyepe++r+++k+l+k+de+t+eeY++++++++f+gTryp++etla+Lglledv++lf+k++let+msy Chr1_2 4773455 QRRAEIARGKRAMLSRYALIDEDIETEYEPESWREERKLLNKPDEVTVEEYIRFFEMNDFWGTRYPCYETLAQLGLLEDVQHLFEKCHLETLMSY 4773549 59********************************************************************************************* PP ATHILA 96 pyeaykeetveflstlelelyqesedrekeeeglGyitFkvkgveyslsikqleeifgFpskkgikpkf 164 py aykeet+eflstl++e+y++++d e++++glG++tF++++++y+lsik+lee+fgFps+k +kp++ Chr1_2 4773550 PYAAYKEETIEFLSTLQVEMYEGLTDFELDTMGLGFLTFSIDEQRYRLSIKNLEELFGFPSGKRTKPSI 4773618 *****************************************************************9875 PP == domain 4 score: 40.0 bits; conditional E-value: 2e-13 ATHILA 1 trreeiargkrvveseeevieEdveveyepepvrrrtkelkkkdeltpeeYykllkelefe 61 +rr+eiargkr+++s++e+i+Ed+e+eyepe++r++ k+l+k+ eeY++++++++f+ Chr1_2 4778740 QRRAEIARGKRAMSSRYELIDEDIETEYEPESWRKEMKLLNKP----DEEYIRFFEMNDFW 4778796 59****************************************9....68***********9 PP == domain 5 score: 353.3 bits; conditional E-value: 1.7e-108 ATHILA 1 trreeiargkrvveseeevieEdvev..eyepepvrrrtkelkkkdeltpeeYykllkelefegTryphketlaeLglledvdylfkkakletfm 93 +rr eiargkr++ +e+ +++Ed+ +y e + r+tk l+kk +l + Yy ll ef+gTryp+++t++e g+ edv+ylf+k l +m Chr1_2 4790147 RRRVEIARGKRAMAEERSLVDEDLGGdeDYITEITPRATKPLMKKTKLLLDGYYELLAAHEFHGTRYPNSQTMNEFGITEDVEYLFEKSGLLGLM 4790241 5899********************876799***************************************************************** PP ATHILA 94 sypyeaykeetveflstlelelyqesedrekeeeglGyitFkvkgveyslsikqleeifgFpskkgikpkfdkeeLksLwatiasklplnsarsK 188 p +ayk e ++fl++le glGyitF+v+ ++y+l ik+le + gFp ++ +k+kf+k+eL +Lw+ti+ + ++s+r+K Chr1_2 4790242 TNPQSAYKVEALQFLASLE---------------GLGYITFTVYAKDYVLAIKTLEDMLGFPRGTYVKHKFKKKELSDLWVTIGDDVQFSSSRAK 4790321 ****************986...............69*********************************************************** PP ATHILA 189 snqirspvirylqrsiAnvlfsrestgtvtnselelldqaLkeiLrrtkdgrklkg..dlndtslsvvLldhLls....Yreyaatikkk.lrGs 276 sn ir+p iry+q+++Anvl++re+tg ++n+e+elld aLk +L +tk++ +g ++ ++ ++ +++ ++e + ++ Chr1_2 4790322 SNAIRNPCIRYFQKALANVLYAREKTGPINNGEIELLDVALKDLLVYTKNKVY-EG*hKR------CLTINAFIEstl*FQE---MGTSE*AQEN 4790406 *************************************************9854.434233......3333444442556666...3444566666 PP ATHILA 277 lcvGGvvTpiliavgvplsskglepraidldylkrkeflelkasddayrykfehselkksellLpskevTtieekenIdfkPskeil....sapp 367 v+Tpil+a+gvpl+s+ ++ r+id+ +l+ f+e++ + ++ kf+h++ ++llLps+e Tti + f+P++e+l sapp Chr1_2 4790407 HFYRRVITPILMACGVPLQSTPFTTRWIDIPHLRWALFIEHQSHEGMHSLKFQHRTEMDATLLLPSQELTTIMVRGTSIFNPPNEELffmdSAPP 4790501 66688****************************************************************************************** PP ATHILA 368 edeaelteeaeeedvdeed.edeeaelekfdtsqyhFeehappareskslsevhkklsklqkwckkqdkllkkllkkikklkkklkssss 456 + ea ++ee ++++ e+ e ee+++e+++ s++hFee++pp r sksl+ +hk+ + + w k+qdk+l+k k+i ++ l++sss Chr1_2 4790502 TREARHNEERAKNEERAEN*EVEEMDWENYNASRFHFEEYQPPPRVSKSLNVAHKNIGSMSAWNKFQDKMLEKYGKAIAAIQAVLSCSSS 4790591 ************999999999*******************************************************************98 PP == domain 6 score: 394.2 bits; conditional E-value: 6.7e-121 ATHILA 1 trreeiargkrvves..........eeevieEdvev..eyepepvrrrtkelkkkdeltpeeYykllkelefegTryphketlaeLglledvdyl 83 ++ree+argkrv+e+ ee+v+eE+ve+ +++p+pv +r++++++k+e+tp+eYy++lkel+fegTryphket++eL ++ dv+yl Chr1_2 4796963 MQREEVARGKRVIEAeeehheeapfEEAVSEEEVEIieDDTPTPV-GRRNRPRRKREPTPSEYYQYLKELKFEGTRYPHKETMQELDICGDVEYL 4797056 68***********************************99******.************************************************* PP ATHILA 84 fkkakletfmsypyeaykeetveflstlelelyqesedrekeeeg.lGyitFkvkgveyslsikqleeifgFpskkgikpkfdkeeLksLwatia 177 ++ a+l+tfms+++ +ykee++++l+tl++++ + ++ekee+g lGyitFk+++vey+l+i++l++ifgFps++gi++++d+eeLksLw+ti+ Chr1_2 4797057 MELANLATFMSCQC-GYKEESCQLLATLKVHFG--VDNSEKEERGgLGYITFKIRDVEYTLDICHLDTIFGFPSGEGIRQDYDQEELKSLWKTIV 4797148 *************9.8***************88..9999******************************************************** PP ATHILA 178 sklplnsarsKsnqirspvirylqrsiAnvlfsrestgtvtnselelldqaLkeiLrrtkdgrklkgdlndtslsvvLldhLlsYreyaatikkk 272 +++p+++++sKs++ir+pviryl+++iAn+lf+++ t++v+++el+++dq+L++iLr+t+dgrk++ d++dtslsvvLldhLlsY+eyaati+++ Chr1_2 4797149 GPKPFSPTKSKSSSIRNPVIRYLHQCIANTLFPKKATAFVSEEELCMIDQSLVFILRETRDGRKMASDRADTSLSVVLLDHLLSYKEYAATIHRS 4797243 *********************************************************************************************** PP ATHILA 273 .lrGs 276 +r s Chr1_2 4797244 gIRES 4797248 88865 PP == domain 7 score: 282.3 bits; conditional E-value: 5.9e-87 ATHILA 77 ledvdylfkkakletfmsypyeaykeetveflstlelelyqesedrekeeeg..lGyitFkvkgveyslsikqleeifgFpskkgikpkfdkeeL 169 + dv+yl++ a+l+tfms+++ +ykee++++l+tl++++ + d+ekee+g lGyitFk+++vey+l+i++l++ifgFps++gi++++d+eeL Chr1_2 4819344 CGDVEYLMELANLATFMSCQCGGYKEESCQLLATLKVHFG--VDDSEKEERGggLGYITFKIRDVEYTLDICHLDTIFGFPSGEGIRQDYDQEEL 4819436 89************************************98..888888888778***************************************** PP ATHILA 170 ksLwatiasklplnsarsKsnqirspvirylqrsiAnvlfsrestgtvtnselelldqaLkeiLrrtkdgrklkgdlndtslsvvLldhLlsYre 264 ksLw+ti++++p+++++sKs++ir+pviryl+++iAn+lf+++ t++v+++el+++dq+ ++iLr+t+dg+k++ d++dtslsvvLldhLlsY+e Chr1_2 4819437 KSLWTTIVGPKPFSPTKSKSSSIRNPVIRYLHQCIANTLFPKKATAFVSEEELCMIDQSFVFILRETRDGKKMASDRADTSLSVVLLDHLLSYKE 4819531 *********************************************************************************************** PP ATHILA 265 yaatikkk 272 yaati+++ Chr1_2 4819532 YAATIHRS 4819539 ******98 PP == domain 8 score: 207.8 bits; conditional E-value: 2.5e-64 ATHILA 1 trreeiargkrvveseeevieEdveveyepepvrrrtkelkkkdeltpeeYykllkelefegTryphketlaeLglledvdylfkkakletfmsy 95 +r++eiargkr++++++e+i+ d+e+ey+pe++rr+tk+l+k+d l++eeY++l+k +ef++Try +++tl +Lglledv++l+++++l+t+m+y Chr1_2 4831361 RRKAEIARGKRAMTERYELIDKDLEDEYMPEHTRRATKLLHKPDVLPAEEYIRLFKLNEFCSTRYSCSTTLSHLGLLEDVQHLYHSCHLDTLMAY 4831455 589******************************************************************************************** PP ATHILA 96 pyeaykeetveflstlelelyqesedrekeeeglGyitFkvkgveyslsikqleeifgFpskkgikpkfd 165 py+ay++et++flstl++elyq+++++e+++eglG+++F+v+g+ey+lsik+le +fgFp + + +p++ Chr1_2 4831456 PYVAYEDETIQFLSTLQVELYQGMTSDELDCEGLGFLRFSVYGHEYRLSIKRLEGLFGFPVERELSPSMT 4831525 ****************************************************************999875 PP == domain 9 score: 261.6 bits; conditional E-value: 1.2e-80 ATHILA 1 trreeiargkrvveseeevieEdvev..eyepepvrrrtkelkkkdeltpeeYykllkelefegTryphketlaeLglledvdylfkkakletfm 93 +rreei rgkr++++++e+++E++e+ ey pe++r++tk+l+k+d+lt +Yyk lk+++f+gTryph+et+aeLg+ledv+ lf+k+++ t+m Chr1_2 4951146 RRREEISRGKRAMTENHELVDEEIEDdaEYIPEQTRKTTKSLMKEDKLTLGDYYKALKRNSFWGTRYPHPETMAELGILEDVQLLFEKCHMTTLM 4951240 69************************9******************************************************************** PP ATHILA 94 sypyeaykeetveflstlelelyqesedrekeeeglGyitFkvkgveyslsikqleeifgFpskkgikpkfdkeeLksLwatiasklplnsarsK 188 s py++y++et++fls+l++el++++ + e++eeglGy +F++++++y + ik+le++fgFps++g+k +f++eeLksLw ti+ +nsarsK Chr1_2 4951241 SHPYPTYEDETLQFLSSLQVELFEGLSAAELREEGLGYSSFTIDDRDYIMAIKTLESMFGFPSGTGTKLRFSQEELKSLWNTIGDTTSFNSARSK 4951335 *********************************************************************************************** PP ATHILA 189 snqirspvirylq 201 sn+ir+p+iry++ Chr1_2 4951336 SNSIRNPAIRYFR 4951348 ***********97 PP == domain 10 score: 594.3 bits; conditional E-value: 1.4e-181 ATHILA 1 trreeiargkrvve.seeevieEdveveyepepvrrrtkelkkkdeltpeeYykll.kelefegTryphketlaeLglledv.dylfkkakletf 92 +r++eiargkr+++ + +e+i+Ed+e+ey+pe++ r+tk+l+k++ l++eeY++l+ +e ++Tryp+++ la+Lglledv l+++++l+t+ Chr1_2 5166883 RRKAEIARGKRAMT*R-YELIDEDLEDEYMPEQTSRATKLLHKPNVLPAEEYVRLF*L-NELCSTRYPCSTSLAQLGLLEDV*H-LYQSCHLDTL 5166974 589**********777.*************************************9553.4679********************9.********** PP ATHILA 93 msypyeaykeetveflstlelelyqesedrekeeeglGyitFkvkgveyslsikqleeifgFpskkgikpkfdkeeLksLwatiasklplnsars 187 m+y y+ay++et++fls l++elyq+++++e+++eglG+++F+ +g+ey+lsik+le +fgFps++g kpk+d+eeLk+Lw+ti+s++plns+rs Chr1_2 5166975 MAYSYVAYEDETIQFLSMLQVELYQGMTSEELDCEGLGFLRFSEYGHEYRLSIKRLEGLFGFPSGTGSKPKYDREELKDLWITIGSSVPLNSSRS 5167069 *********************************************************************************************** PP ATHILA 188 KsnqirspvirylqrsiAnvl.fsrestgtvtnselelldqaLkeiLrrtkdgrklkgdlndtslsvvLldhLlsYreyaatikkk.lrGslcvG 280 Ksn irspviry+qrsiAnvl +e+tgtvtns++el+++aLk +Lr+tk+g++l+g+ ndt+lsv+Ll+hL++Y+++a+++++k +rG+lc+G Chr1_2 5167070 KSNHIRSPVIRYFQRSIANVL*S-QEITGTVTNSDMELIAMALKVTLRQTKNGMSLQGEINDTPLSVLLLIHLCGYKSRAVSNNHKrARGALCIG 5167163 *******************9555.79********************************************************************* PP ATHILA 281 GvvTpiliavgvplsskglepraidldylkrkeflelkasddayrykfehselkksellLpskevTtieekenIdfkPskeil...sappedeae 372 GvvTpilia+gvp+ s+glepra+d++ l+++efle++++dd+ r++fehs+++++++lLps+evT+i+e++nIdf+P+ +l +app d+++ Chr1_2 5167164 GVVTPILIACGVPIISAGLEPRAMDIEPLRHCEFLEFAMVDDFQRFRFEHSTDRRASILLPSPEVTRIIEGDNIDFRPEVGRLyyeNAPPLDDDD 5167258 *********************************************************************************************** PP ATHILA 373 lteeaeeedvdeededeeaelekfdtsqyhFeehappareskslsevhkklsklqkwckkqdkllkkllkkikklkkklkssssq 457 l ee ++ d++ded+ +e fdts+yhF e++ppar+sksl+e+hk++sklqkwckkqdkll+k++k+ik l++kl++ss + Chr1_2 5167259 LREEVAS---DGMDEDRGVE---FDTSMYHFGEYVPPARQSKSLTEAHKNNSKLQKWCKKQDKLLAKCFKAIKLLTDKLSCSSCT 5167337 ******9...**********...***********************************************************987 PP == domain 11 score: 354.2 bits; conditional E-value: 9.5e-109 ATHILA 122 rekeeeg.lGyitFkvkgvey.slsikqleeifgFpskkgikpkfdkeeLksLwatiasklplnsarsKsnqirspvirylqrsiAnvlfsrest 214 +eke+++ + yitF+v+g+ sl i ql+ +f+Fp+k+gi+++f+keeL++Lw+tia+ l ++sar+Ks+ irspv+ryl+ +iAn++f++++t Chr1_2 5400868 TEKELHKgVEYITFMVYGN-H*SLAIGQLDVVFKFPTKYGIRQNFNKEELHDLWLTIAGLLLYKSARAKSSAIRSPVLRYLHLCIANAFFPKKTT 5400961 68999999*********95.7889*********************************************************************** PP ATHILA 215 gtvtnselelldqaLkeiLrrtkdgrklkgdlndtslsvvLldhLlsYreyaatikkk.lrGslcvGGvvTpiliavgvplsskglepraidldy 308 g+v ++el++ld++L++iL++tk + +++gd+ dtslsvvL+dhL+s+ eya++i ++ ++Gslc+ Gv+T ilia+gv l++ ++++ +id+++ Chr1_2 5400962 GHVIEGELKMLDLTLCFILGYTKKKIEMEGDRSDTSLSVVLIDHLISFWEYATGILQSgYGGSLCARGVITHILIAAGVSLHTLNVTANYIDMEH 5401056 *********************************************************************************************** PP ATHILA 309 lkrkeflelkasddayrykfehselkksellLpskevTtieekenIdfkPskeil..............sappedeaelteeaeeedv....... 382 l++k fl+++a++d++++kf+h++l+ s+l+Lp+ke Tt++++++Idf+P+ +il s+++e+eae++++++e++ Chr1_2 5401057 LRKKGFLDRSAPADQFQFKFKHPKLGLSRLALPCKEYTTVRTGNKIDFDPPPSILvnvhvpfhdepsirSESQEEEAEFNQAEAEQEEhtrpsif 5401151 *********************************************************************55555555554444444433344444 PP ATHILA 383 ................deededeeaelekfdtsq..yhFeehappareskslsevhkklsklqkwckkqdkllkkllkkikklkkklkssssq 457 e+ de+++ +++ y+Fe++a+ ++++++ ++vhkkl++l+ ++k++++l+++l+kk++k+k++++ ++ q Chr1_2 5401152 qqaeygqaeydlsefsRAEQFDEKED--SCEAAAe*YFFEDYAESDQKRDP-GQVHKKLGMLKGLGKFHRRLISGLKKKVRKMKRAMNGMAIQ 5401241 44454544553333323344444444..344444699**************.**************************************987 PP >> RVT_2 Reverse transcriptase (RNA-dependent DNA polymerase) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 334.3 0.5 3e-103 8.6e-103 1 244 [. 1261275 1261518 .. 1261275 1261520 .. 0.99 2 ! 146.2 0.1 8.3e-46 2.4e-45 100 245 .. 3438783 3438929 .. 3438778 3438930 .. 0.96 3 ! 326.9 0.3 5.3e-101 1.5e-100 1 244 [. 3930774 3931017 .. 3930774 3931019 .. 0.99 4 ! 243.9 0.2 1.2e-75 3.4e-75 1 187 [. 4281351 4281537 .. 4281351 4281543 .. 0.98 5 ! 32.9 0.1 3.2e-11 9.2e-11 1 52 [. 4366927 4366979 .. 4366927 4366986 .. 0.94 6 ! 54.4 0.4 8.7e-18 2.5e-17 142 244 .. 4367069 4367174 .. 4367063 4367176 .. 0.96 7 ! 211.2 0.1 1.1e-65 3.3e-65 6 239 .. 5353104 5353342 .. 5353099 5353343 .. 0.90 8 ! 35.1 0.0 6.8e-12 2e-11 172 245 .. 5373695 5373768 .. 5373678 5373769 .. 0.90 9 ! 147.8 0.3 2.6e-46 7.5e-46 28 142 .. 5393347 5393461 .. 5393345 5393463 .. 0.96 10 ! 60.7 0.0 1e-19 2.9e-19 111 200 .. 5502068 5502157 .. 5502062 5502158 .. 0.95 11 ! 32.4 0.0 4.4e-11 1.3e-10 60 113 .. 5510708 5510761 .. 5510700 5510765 .. 0.91 12 ! 317.6 0.0 3.7e-98 1.1e-97 2 245 .. 5841164 5841411 .. 5841163 5841412 .. 0.99 13 ! 309.2 1.0 1.4e-95 4.1e-95 1 245 [. 6277172 6277416 .. 6277172 6277417 .. 0.98 14 ! 316.1 0.0 1.1e-97 3.2e-97 2 244 .. 6696137 6696379 .. 6696136 6696381 .. 0.99 15 ! 63.6 0.0 1.3e-20 3.8e-20 2 81 .. 7250484 7250563 .. 7250483 7250568 .. 0.93 Alignments for each domain: == domain 1 score: 334.3 bits; conditional E-value: 3e-103 RVT_2 1 nktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngelee 95 n+twel++lp+g+k+ig+kWv+k K+n++ge+erykARlVakG++q+ gidy+e+f+pv++le++rl+++laa++k++++q+Dvk+aFLng+lee Chr1_2 1261275 NDTWELTSLPNGHKAIGVKWVYKAKKNSKGEVERYKARLVAKGYSQRVGIDYDEVFAPVARLETVRLIISLAAQNKWKIHQMDVKSAFLNGDLEE 1261369 79********************************************************************************************* PP RVT_2 96 evYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLk 190 evY++qp+G+ +k++e+kv++Lkk lYgLkqapraW++++++++++++f k+ ++++l++k ++e+++i +lYVDDl+++g++ ++ ee+k+e++ Chr1_2 1261370 EVYIEQPQGYIVKGEEDKVLRLKKVLYGLKQAPRAWNTRIDKYFKEKDFIKCPYEHALYIKIQKEDILIACLYVDDLIFTGNNPSIFEEFKKEMT 1261464 *********************************************************************************************** PP RVT_2 191 kefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstple 244 kefem+d+g ++y+Lg+e++++++gi+++qe y+k++lkkfkm+d++pv tp+e Chr1_2 1261465 KEFEMTDIGLMSYYLGIEVKQEDNGIFITQEGYAKEVLKKFKMDDSNPVCTPME 1261518 ****************************************************97 PP == domain 2 score: 146.2 bits; conditional E-value: 8.3e-46 RVT_2 100 kqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLkkefe 194 +qp+Gf+++++e+kv+kLkk+lYgL+qapraW++kl+++l++l+f+k++++++ + ++ +e+l++v++YVDDl+i+g++ ++i+e+k+e++++f+ Chr1_2 3438783 TQPDGFQENGDERKVYKLKKALYGLRQAPRAWNNKLNQILQELQFEKCSKEPSFYRREVSENLLVVAVYVDDLFITGTNVAIIDEFKREMSAKFD 3438877 69********************************************************************************************* PP RVT_2 195 mkdlgelkyfLgleierkeegillsqekyvkkllkkfkm.edakpvstplea 245 m+dlg+l+y+L +e+ ++e++i+l+q++y+ k+l++++m +++ +tp+e+ Chr1_2 3438878 MSDLGKLTYYLRIEVCQHEGRITLNQRRYALKILEEAGMmMKCNLLNTPMES 3438929 ************************************9862699******985 PP == domain 3 score: 326.9 bits; conditional E-value: 5.3e-101 RVT_2 1 nktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngelee 95 n+twelvelp+++kviglkW+fk+K ne+ge++++kARlVakG++q++g+d+ e+f+pv+k ++irl+l laaek++++ qlDvk+aFL+g+l+e Chr1_2 3930774 NNTWELVELPEEAKVIGLKWIFKTKFNEKGEVDKFKARLVAKGYHQRYGVDFYEVFAPVAKWDTIRLILGLAAEKGWSVFQLDVKSAFLHGDLKE 3930868 79********************************************************************************************* PP RVT_2 96 evYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLk 190 +v+v+qp+Gfe++++++kv+kLkk+lYgLkqapraWy++++e++ k+gf+k+ ++++lfvkk+++++++v++YVDDl+ +gss+e+ie +k++++ Chr1_2 3930869 DVFVEQPKGFEVEEESSKVYKLKKALYGLKQAPRAWYSRIEEFFGKEGFEKCYCEHTLFVKKERSDFLVVSVYVDDLIYTGSSMEMIEGFKNSMM 3930963 *********************************************************************************************** PP RVT_2 191 kefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstple 244 +ef+m+dlg++kyfLg+e+ ++e+gi+++q+ky+ +++kk++me +++v+ p+ Chr1_2 3930964 EEFAMTDLGKMKYFLGVEVIQDERGIFINQRKYAAEIIKKYGMEGCNSVKNPIV 3931017 **************************************************9986 PP == domain 4 score: 243.9 bits; conditional E-value: 1.2e-75 RVT_2 1 nktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngelee 95 n+tw+lv++p++k+vi++kW++k+K++++g+ +++kARlVa+Gf+q++gidy etf+pv ++++ir+lla+aa+++++l q+Dvk+ FLngelee Chr1_2 4281351 NRTWKLVDKPEKKNVISVKWIYKIKTDASGNHVKHKARLVARGFSQEYGIDYLETFAPVSRYDTIRALLAYAAQMEWRLYQMDVKSVFLNGELEE 4281445 78********************************************************************************************* PP RVT_2 96 evYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelke 187 evYv+qp+Gf+ ++ke+kv++L k+lYgLk apraWye+++ +++++gf +s +d +l++kkk+e+++iv+lYVDDl+i+gs+++li +++e Chr1_2 4281446 EVYVTQPPGFVIEGKEEKVLRLYKALYGLKPAPRAWYERIDFYFIQNGFARSMNDAALYIKKKGEDVLIVSLYVDDLIIIGSNTHLIINIQE 4281537 *************************************************************************************9988876 PP == domain 5 score: 32.9 bits; conditional E-value: 3.2e-11 RVT_2 1 nktwelvelpkgkkviglkWvfklKlnedgei.erykARlVakGftqkegidy 52 nktw lve+ k++k+ig+kWvfk+K g r+kARlVakG++qkegi + Chr1_2 4366927 NKTWILVERSKSQKPIGCKWVFKRKAFIAGVE*PRFKARLVAKGNSQKEGIYF 4366979 79***************************99899****************988 PP == domain 6 score: 54.4 bits; conditional E-value: 8.7e-18 RVT_2 142 lgfkkseadkclfvkkkee.eliivllYVDDlliagsskelieelkeeLkkefemkdlgelkyfLgleierkeegillsq..ekyvkkllkkfkm 233 +g+++s++d c+++k ++ e +++llYV D+lia+++k+ + elk +++efemkdlg++k++Lg++i r+++ + s e y+ k+l +f+m Chr1_2 4367069 IGYERSKYDICVYFKVLQS*EYVYLLLYVYDILIASKDKKYVCELKVLFNSEFEMKDLGDAKKILGMKIIRDRQACTFSTs*EGYLLKVLGDFGM 4367163 79******************************************************************************555************ PP RVT_2 234 edakpvstple 244 ++ak+v+tp++ Chr1_2 4367164 DQAKSVNTPIR 4367174 *********96 PP == domain 7 score: 211.2 bits; conditional E-value: 1.1e-65 RVT_2 6 lvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleeevYvk 100 +v++pkg k++g kWvf K+ne++e+ rykARlVa+Gf+q++gidyee++sp+v+++++r+l+ la+++ + l+ +Dv t++L+ +l++++Y++ Chr1_2 5353104 VVRTPKGVKPVGHKWVFVGKRNENSEVMRYKARLVAQGFSQRHGIDYEEIYSPMVDATTFRFLICLAIREIFYLRLMDVVTTYLYEQLDNNIYMT 5353198 6889******************************************************************************************* PP RVT_2 101 qpeGfedkkk......enkvckLkk..slYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskeliee... 184 p+Gf+ +++ e++++k slYgLkq+ r+Wy++lse+llk+g+k++ ++c+f+k+ +++++i+ +YVDDl i+g+s e ++ Chr1_2 5353199 VPNGFKLHEAantssrEQYCIK--Ln*SLYGLKQSRRMWYNRLSEYLLKEGYKNDPISPCIFIKRFGSGFVIIEVYVDDLNIIGTSVENFTDs*v 5353291 *****99988555542333333..3588*********************************************************9886665343 PP RVT_2 185 lkeeLkkefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpv 239 ++e++++e + kd k++Lgl+ie+ ++gil++q++y+k++lk+f++e++++v Chr1_2 5353292 IEERIRDERSWKD----KFCLGLQIEHLKNGILVHQTTYTKNVLKRFSLEQSTSV 5353342 5666666666655....9*******************************998765 PP == domain 8 score: 35.1 bits; conditional E-value: 6.8e-12 RVT_2 172 lliagsskelieelkeeLkkefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 + i g+ ++l++++++++++ef+++++ge kyfLgl+i++ +egi +sq++y+++l+k+f+m +++pv+t +++ Chr1_2 5373695 VRIGGTFDKLVKAFVKTMTTEFRLSMVGERKYFLGLQINQIDEGIAISQSTYAQNLVKRFDMCSSNPVKTLMST 5373768 567889999************************************************************99975 PP == domain 9 score: 147.8 bits; conditional E-value: 2.6e-46 RVT_2 28 edgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleeevYvkqpeGfe.dkkkenkvckLkksl 121 dg+i +ykARlVakG+ q++gi+++etf+ v++l++ir+l++++a+k++e+++lDvktaFL+gel+e vYv qp+Gf+ ++ ++ kv+kLkk+l Chr1_2 5393347 LDGSIYKYKARLVAKGYVQRYGINFDETFALVARLQTIRILINIVASKNWEIHHLDVKTAFLHGELKEVVYVMQPDGFQ*KE-NKGKVYKLKKAL 5393440 5899**************************************************************************9987.489********* PP RVT_2 122 YgLkqapraWyeklsevllkl 142 YgL+qapraW++kl+++ll+l Chr1_2 5393441 YGLRQAPRAWNNKLNQILLEL 5393461 ******************986 PP == domain 10 score: 60.7 bits; conditional E-value: 1e-19 RVT_2 111 enkvckLkkslYgLkqapraWyeklsevllk.lgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLkkefemkdlge 200 +n+vck +k++YgLkqapraW++ ++++l lgf s+a+++lfv k++ ++ +vl YVDD+++ +ss +li+++ ++Lk ef m+d+g Chr1_2 5502068 TNHVCKQEKAIYGLKQAPRAWNSWFTKFL-M*LGFIMSKANNSLFVFKQGIQMAYVLFYVDDIMLKASSPSLIQKILTQLKGEFPMTDMGP 5502157 699***********************998.5559*******************************************************97 PP == domain 11 score: 32.4 bits; conditional E-value: 4.4e-11 RVT_2 60 vklesirlllalaaekkleleqlDvktaFLngeleeevYvkqpeGfedkkkenk 113 ++ +ir++l++ ++ ++ ++qlDvk+a L+g+l+e+vY++qp+ f++k+ +n+ Chr1_2 5510708 SETRTIRVVLDFGVALNWPIQQLDVKNALLQGHLHETVYMHQPPEFVNKEFPNH 5510761 5789********************************************998776 PP == domain 12 score: 317.6 bits; conditional E-value: 3.7e-98 RVT_2 2 ktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleee 96 +twe+++lp gkk++g+kWvf+lK +dg++erykARlVakG+tqkeg+dy++tfspv+k+++i+lll+++a+kk+ l+qlDv++aFLngeleee Chr1_2 5841164 HTWEITTLPAGKKAVGCKWVFSLKFLADGSLERYKARLVAKGYTQKEGLDYTDTFSPVAKMTTIKLLLKISASKKWFLKQLDVSNAFLNGELEEE 5841258 8********************************************************************************************** PP RVT_2 97 vYvkqpeGfedkkk....enkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelke 187 +Y+k peG+ +k +n vc+Lk+s+YgLkqa+r+W++k+s+ ll+lgfkk++ d++lf+k+ + e++ivl+YVDD+ ia++s+ + +l++ Chr1_2 5841259 IYMKLPEGYAARKGitlpPNSVCRLKRSIYGLKQASRQWFKKFSASLLDLGFKKTHGDHTLFIKEYDGEFVIVLVYVDDIAIASTSEGAAIQLTQ 5841353 ***********9989999***************************************************************************** PP RVT_2 188 eLkkefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 +L+++f+++dlg+lkyfLglei+r+e+gi+++q+ky+ +ll++++m ++kpvs+p+ + Chr1_2 5841354 DLQQRFKLRDLGDLKYFLGLEIARTEAGISICQRKYALELLASTGMVNCKPVSVPMIP 5841411 *******************************************************976 PP == domain 13 score: 309.2 bits; conditional E-value: 1.4e-95 RVT_2 1 nktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngelee 95 n+tw+lv++p++k+vi++kW++k+K++++g+ +++kARlVa+Gf+q++gidy etf+pv ++++ir+lla+aa++k++l q+Dvk+aFLngelee Chr1_2 6277172 NRTWKLVDKPEKKNVISVKWIYKIKTDANGNHVKHKARLVARGFSQEYGIDYLETFAPVSRYDTIRALLAYAAQMKWRLYQMDVKSAFLNGELEE 6277266 78********************************************************************************************* PP RVT_2 96 evYvkq.peGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeL 189 evYv + p+Gf+ ++k++kv++L k+lYgLkqapraWye+++++++++gf +s +d +l++kkk+e ++iv+lYVDDl+i+g++++li+++k+++ Chr1_2 6277267 EVYV-T*PPGFVIEGKKEKVLRLYKALYGLKQAPRAWYERIDSYFIQNGFARSMNDAALYIKKKGEYVLIVSLYVDDLIITGNNTHLINTFKKNM 6277360 ***9.6667************************************************************************************** PP RVT_2 190 kkefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 k+efem+dlg l+yfLg+e +++++gi+lsqeky++kl++kf+m+++k+vstp+++ Chr1_2 6277361 KDEFEMTDLGLLNYFLGMEEHQDDSGIFLSQEKYANKLIDKFGMKESKSVSTPFTP 6277416 *****************************************************875 PP == domain 14 score: 316.1 bits; conditional E-value: 1.1e-97 RVT_2 2 ktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleee 96 +tw+lv+ ++++v+g+ Wvf++Kl++dg++++ kARlVakGf+q+egidy et+spvv++ ++rl+l++a+ k+el+q+Dvk+aFL+g+l+e+ Chr1_2 6696137 ETWTLVPYSPNMNVLGSMWVFRTKLHADGSLDKLKARLVAKGFKQEEGIDYLETYSPVVRTPTVRLILHVATVLKWELKQMDVKNAFLHGDLTET 6696231 8********************************************************************************************** PP RVT_2 97 vYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLkk 191 vY++qp Gf+dk+k+++vc L+kslYgLkq+praW++++s++ll++gf s d++lfv+++++++i++llYVDD++i+g++++ +++l ++L+k Chr1_2 6696232 VYMRQPAGFVDKSKPDHVCLLHKSLYGLKQSPRAWFDRFSNFLLEFGFICSLFDPSLFVYSSNNDVILLLLYVDDMVITGNNSQSLTHLLAALNK 6696326 *********************************************************************************************** PP RVT_2 192 efemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstple 244 ef+mkd+g+++yfLg++i+ ++g+++sq+ky+++ll +++m +++p+ tpl Chr1_2 6696327 EFRMKDMGQVHYFLGIQIQTYDGGLFMSQQKYAEDLLITASMANCSPMPTPLP 6696379 **************************************************985 PP == domain 15 score: 63.6 bits; conditional E-value: 1.3e-20 RVT_2 2 ktwelvelpkgkkvi.glkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleq 81 +tw+l++ ++++ + g+kWvf++Kln dg++++ kA +VakGf q+egidy et+spvv++ ++rl+l+la++ ++el+q Chr1_2 7250484 NTWSLIPYTPNM-NV*GSKWVFRTKLNVDGTLNKLKAHIVAKGFLQEEGIDYLETYSPVVRTPTVRLVLHLATALNWELKQ 7250563 678888877765.47899*************************************************************98 PP >> rve Integrase core domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 97.6 0.0 5.2e-31 1.5e-30 2 119 .. 1260934 1261052 .. 1260933 1261053 .. 0.98 2 ! 85.2 0.0 3.6e-27 1e-26 3 118 .. 3537437 3537551 .. 3537435 3537553 .. 0.96 3 ! 92.9 0.0 1.5e-29 4.2e-29 3 119 .. 3930415 3930532 .. 3930413 3930533 .. 0.97 4 ! 57.4 0.0 1.5e-18 4.3e-18 11 119 .. 4280998 4281107 .. 4280996 4281108 .. 0.96 5 ! 53.4 0.1 2.5e-17 7.3e-17 9 119 .. 4610185 4610293 .. 4610183 4610294 .. 0.94 6 ! 50.1 0.0 2.7e-16 7.7e-16 5 117 .. 4696414 4696523 .. 4696411 4696526 .. 0.90 7 ! 50.0 0.0 2.9e-16 8.4e-16 6 119 .. 4774297 4774407 .. 4774293 4774408 .. 0.95 8 ! 72.4 0.0 3.4e-23 9.8e-23 6 118 .. 5061904 5062013 .. 5061900 5062015 .. 0.95 9 ! 46.5 0.0 3.5e-15 1e-14 27 118 .. 5101231 5101320 .. 5101230 5101322 .. 0.91 10 ! 46.5 0.0 3.5e-15 1e-14 27 118 .. 5133925 5134014 .. 5133924 5134016 .. 0.91 11 ! 55.4 0.1 6.2e-18 1.8e-17 8 117 .. 5240690 5240796 .. 5240687 5240796 .. 0.92 12 ! 36.4 0.0 5e-12 1.4e-11 3 118 .. 5463871 5463984 .. 5463869 5463986 .. 0.93 13 ! 47.8 0.0 1.4e-15 4e-15 3 106 .. 5559314 5559417 .. 5559313 5559417 .. 0.91 14 ! 86.4 0.0 1.5e-27 4.4e-27 3 119 .. 6276811 6276928 .. 6276809 6276929 .. 0.97 15 ! 95.2 0.0 3e-30 8.6e-30 2 116 .. 6695706 6695821 .. 6695705 6695823 .. 0.98 16 ! 26.5 0.1 5.7e-09 1.6e-08 76 116 .. 7250145 7250185 .. 7250144 7250187 .. 0.96 Alignments for each domain: == domain 1 score: 97.6 bits; conditional E-value: 5.2e-31 rve 2 atrpgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirh 95 a++p+el+++Dv+ p++++s g+ +y+l +iddfsr++++++lk +s+++++++ +++ ve+ g +k+++sD+g eftsk+f ++++++gir Chr1_2 1260934 AQKPLELIHTDVCgPIKPKSLGKSNYFLLFIDDFSRKTWVYFLKEKSEVFEIFKKFKAHVEKESGLVIKTMRSDRGGEFTSKEFLKYCEDNGIRR 1261028 679******************************************************************************************** PP rve 96 kftrpyrpqdngkvErfnrtlkee 119 + t p++pq+ng+vEr+nrt+ e+ Chr1_2 1261029 QLTVPRSPQQNGVVERKNRTILEM 1261052 *********************986 PP == domain 2 score: 85.2 bits; conditional E-value: 3.6e-27 rve 3 trpgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhk 96 t +el+++D + p+r ++ g +++lt++dd+sr ++++ l+++++a t + + ++ver++ ++++++sDngsef ++++++e gi h+ Chr1_2 3537437 TMAFELIHCDLWgPYRTSALCGSRFFLTIVDDYSRAVWIYLLTSKQEAPTHMKNFLALVERQFSTHVRTIRSDNGSEFI--CLRDFFAEKGIVHE 3537529 56799**************************************************************************..59************ PP rve 97 ftrpyrpqdngkvErfnrtlke 118 ++++++pq+ng vEr+++++ + Chr1_2 3537530 MSCVGTPQQNGRVERKHQHILN 3537551 *******************975 PP == domain 3 score: 92.9 bits; conditional E-value: 1.5e-29 rve 3 trpgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhk 96 t+ ++l+++D++ p+++ s gk+y+l +iddfsr+++++ l+ +s+++++++ +++ ver g++ l+sD+g e+ s++f +++ke+gi+ + Chr1_2 3930415 TQVLQLVHTDICgPINPASTSGKRYILNFIDDFSRKCWTYLLSEKSETFQFFKEFKAEVERESGKKLVCLRSDRGGEYNSREFDEYCKEFGIKRQ 3930509 78899****************************************************************************************** PP rve 97 ftrpyrpqdngkvErfnrtlkee 119 t++y+pq+ng++Er+nr ++++ Chr1_2 3930510 LTAAYTPQQNGVAERKNRSVMNM 3930532 ******************99875 PP == domain 4 score: 57.4 bits; conditional E-value: 1.5e-18 rve 11 iDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelg.irhkftrpyrp 103 Dv+ p++ +s +g +y + ++dd+++++++++lk++s+++ +++ ++++ve++ ++++k+l+sD g fts++f ++++e i+ + t py+p Chr1_2 4280998 YDVCgPMQHQSIDGSRYYVLFLDDYTHMCWVYFLKQKSETFGTFKKFKALVEKQSNCSIKTLRSDGGGKFTSREFNQFCEE-E*INRQVTLPYSP 4281091 699999************************************************************************975.9************ PP rve 104 qdngkvErfnrtlkee 119 q+ng +Er+nr l e+ Chr1_2 4281092 QQNGAAERKNRSLVEM 4281107 ***********99775 PP == domain 5 score: 53.4 bits; conditional E-value: 2.5e-17 rve 9 wqiDvtpgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkftrpyrp 103 +++D+++g + s+ k +++++d+ ++ +++ a+++++ a+++a+ + + + +gv p +++sD+ s fts+ ++a+ +e+g++++++++y+p Chr1_2 4610185 ITMDFVVGLPVSRT-KDAIWVIVDRLTKSAHFLAITKTDVAAVLAKKYVSEIVKLHGV-PVSIVSDRDSKFTSAFWRAFQAEMGTKVQMSTAYHP 4610277 789***66655555.7******************************************.************************************ PP rve 104 qdngkvErfnrtlkee 119 q+ g+ Er+++tl+++ Chr1_2 4610278 QTDGQSERTIQTLEDM 4610293 *************997 PP == domain 6 score: 50.1 bits; conditional E-value: 2.7e-16 rve 5 pgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkft 98 +++w iD+ p++ +s+g ++y+l+aid s+++ a+a ++ +a +v++l+++++ r+gv p++++sD g+ f +k fe+llk++g++hk + Chr1_2 4696414 NFDVWGIDFMgPFP-SSYG-NKYILVAIDYVSKWVEAIASHTN-DARVVLKLFKTIIFPRFGV-PRIVISDGGKHFINKGFENLLKKHGVKHKVA 4696504 6899******9999.6666.8**********************.*******************.******************************* PP rve 99 rpyrpq.dngkvErfnrtlk 117 +py+ q + g+vE +nr +k Chr1_2 4696505 TPYH-Q*TSGQVEISNREIK 4696523 **86.555566777777666 PP == domain 7 score: 50.0 bits; conditional E-value: 2.9e-16 rve 6 gelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkftr 99 ++ w iD+ p+++++k+ y+l+a+d ++ ++a + +++v +l++ ++ ++gv p +++sD g+ f +k + +ll ++g++h+ ++ Chr1_2 4774297 FDCWGIDFMgPFPPSNKN--LYILVAVDYVPKWEEVIASLKN-NSTVVMKLFNSIIFPHFGV-PCIVISDGGKHFINKILAKLLLQYGVQHRVAT 4774387 6789*********77777..****************999999.*******************.******************************** PP rve 100 pyrpqdngkvErfnrtlkee 119 py+pq+ g+vE +nr +ke Chr1_2 4774388 PYHPQTSGQVEVSNRQIKEI 4774407 *****************986 PP == domain 8 score: 72.4 bits; conditional E-value: 3.4e-23 rve 6 gelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkftr 99 +++w iD+ p++ +s+g ++y+l+a+d s+++ a+a ++ +a++v++l+++++ r+gv p++++sD g+ f +k fe+llk++g++hk ++ Chr1_2 5061904 FDVWGIDFMgPFP-SSYG-NKYILVAVDYVSKWVEAIASPTN-DAKVVLKLFKTIIFPRFGV-PRVVISDGGKHFINKVFENLLKKHGVKHKVAT 5061994 789******9999.6666.8**********************.*******************.******************************** PP rve 100 pyrpqdngkvErfnrtlke 118 py+pq+ g+vE +nr +k+ Chr1_2 5061995 PYHPQTSGQVEISNREIKT 5062013 ****************997 PP == domain 9 score: 46.5 bits; conditional E-value: 3.5e-15 rve 27 lltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkftrpyrpqdngkvErfnrtlke 118 +l+++d fs++i ae + + ++a++ +++++++ +g p ++++Dn s+f s +f+ ++ ++gir++ ++p+ pq ng++E n+t+ + Chr1_2 5101231 VLVLTDYFSKWIEAESYASIKDAQVENFVWKHILCHHGI--PYEIVTDNCSQFISTRFQGFCDKWGIRLCKSTPRYPQGNGQAEAANKTILD 5101320 7899****************7777777777777777777..************************************************987 PP == domain 10 score: 46.5 bits; conditional E-value: 3.5e-15 rve 27 lltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkftrpyrpqdngkvErfnrtlke 118 +l+++d fs++i ae + + ++a++ +++++++ +g p ++++Dn s+f s +f+ ++ ++gir++ ++p+ pq ng++E n+t+ + Chr1_2 5133925 VLVLTDYFSKWIEAESYASIKDAQVENFVWKHILCHHGI--PYEIVTDNCSQFISTRFQGFCDKWGIRLCKSTPRYPQGNGQAEAANKTILD 5134014 7899****************7777777777777777777..************************************************987 PP == domain 11 score: 55.4 bits; conditional E-value: 6.2e-18 rve 8 lwqiDvtpgripskggkaylltaiddfsrfivaealkdessaetvadlleraver.rggvepkrllsDngseftskafeallkelgirhkftrpy 101 + +D ++++ ++g k+y++t+idd+ r+++++ l+++++a + ++ + ve+ ++ +k+++sD+g e+ + f +++e +i hk+ +py Chr1_2 5240690 TYLCDLKYVQ--TRGAKKYFVTFIDDCIRYCYVYLLHSKDEALVKFKEFTLEVEN*HQRT-IKIVRSDRGGEYN-EPFNVFCREKDIIHKTIAPY 5240780 5678999999..77779**********************999999999998888886665.99***********.89****************** PP rve 102 rpqdngkvErfnrtlk 117 +p++ng++Er+n+tlk Chr1_2 5240781 SPESNGVAERKNQTLK 5240796 **************98 PP == domain 12 score: 36.4 bits; conditional E-value: 5e-12 rve 3 trpgelwqiDvtpgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkf 97 t+ +e +++D+++g p+ gg + +l+++d+ s+ +++ lk+ +a +va+ ++ v + g pk+++sD+ + f + +++++k g+++k+ Chr1_2 5463871 TAVWEDISVDFIEGL-PTSGGVNVILVVVDRLSKAVYFLGLKHLFKAIDVANKFVSEVVKLYGF-PKSIVSDRDRIFLGAVWKDMFKLSGTQLKH 5463963 788999******999.67777***********************99999999999999999997.****************************** PP rve 98 trpyrpqdngkvErfnrtlke 118 ++ yrpq+ g+ E nr l++ Chr1_2 5463964 STSYRPQTDGQTEVLNRCLET 5463984 *****************9986 PP == domain 13 score: 47.8 bits; conditional E-value: 1.4e-15 rve 3 trpgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrll.sDngseftskafeallkelgirh 95 t+ el+++D p++++s+ gk+y+++++ddf+r++++++l+ +s a++ +++l +++ + + sD+g ef+++ f +++++ gi h Chr1_2 5559314 THAVELIHMDLMgPINVQSRAGKTYIFVMVDDFTRYTWVRFLQEKSNAFESFRVLALQLKNGRA--GIETI*SDHGGEFQNEFFDKFCNDQGIVH 5559406 67889****************************************9999999999955555444..5677799********************** PP rve 96 kftrpyrpqdn 106 ++++p++pq++ Chr1_2 5559407 QYSAPRTPQQQ 5559417 *********96 PP == domain 14 score: 86.4 bits; conditional E-value: 1.5e-27 rve 3 trpgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhk 96 ++++e++++Dv+ p++ +s +g +y + ++dd+++++++++lk++s+++++++ ++++ve++ ++++k+l+sD g efts++f +++++ gi+ + Chr1_2 6276811 REKLEIVHTDVCgPMQHQSIDGSRYYVLFLDDYTHMCWVYFLKQKSETFATFKKFKALVEKQSNCSIKTLRSDGGGEFTSREFNQFCEDEGINRQ 6276905 6889******************************************************************************************* PP rve 97 ftrpyrpqdngkvErfnrtlkee 119 t py+pq+ng +Er+nr l e+ Chr1_2 6276906 VTLPYSPQQNGAAERKNRSLVEM 6276928 ******************99775 PP == domain 15 score: 95.2 bits; conditional E-value: 3e-30 rve 2 atrpgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirh 95 a+rp+e++++D + p + +s++g++y +++id +srf+++++lk +s+ ++++ +++++ve++ g+++k++++D g ef s++f + l+++gi++ Chr1_2 6695706 ASRPLERIHCDLWgPSPTSSVQGFRYYVVFIDHYSRFTWFYPLKLKSDFFSTFVMFQKLVENQLGHKIKIFQCDGGGEFISSQFLKHLQDHGIQQ 6695800 689******************************************************************************************** PP rve 96 kftrpyrpqdngkvErfnrtl 116 +++py+pq+ng++Er++r++ Chr1_2 6695801 NMSCPYTPQQNGMAERKHRHI 6695821 *******************98 PP == domain 16 score: 26.5 bits; conditional E-value: 5.7e-09 rve 76 gseftskafeallkelgirhkftrpyrpqdngkvErfnrtl 116 g ef s++f + l+++gi+++ ++p++pq+ng++Er++r+l Chr1_2 7250145 GGEFISQKFLQHLQDHGIQQHISCPHTPQQNGLAERKHRHL 7250185 78**************************************9 PP >> Transposase_21 Transposase family tnp2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 294.7 0.5 3.3e-91 9.4e-91 3 195 .. 4233576 4233768 .. 4233575 4233775 .. 0.98 2 ! 309.3 0.0 1.1e-95 3.1e-95 2 220 .. 4377628 4377848 .. 4377627 4377852 .. 0.97 3 ! 63.1 0.0 2.1e-20 6e-20 135 224 .. 4577881 4577972 .. 4577880 4577974 .. 0.94 4 ! 121.6 0.0 2.6e-38 7.6e-38 104 224 .. 5244763 5244883 .. 5244761 5244885 .. 0.98 Alignments for each domain: == domain 1 score: 294.7 bits; conditional E-value: 3.3e-91 Transposase_21 3 mrwhkeerkkdgklrhpaDgeaWkkfdekypeFakdaRnvrlgLstDGfnPfgklsssyslWpvllvpynlppelcmkeenillsll 89 mrwh+e+ + dg+++hp+D+eaWk+f+++y++Fa++ Rnv+lgL+tDGfnPfgk+ ++yslWpv+l+pynlpp+lcmk+e+++ls+l Chr1_2 4233576 MRWHAEHSS-DGNISHPSDAEAWKHFNSMYKDFANEHRNVYLGLCTDGFNPFGKSGRKYSLWPVILTPYNLPPSLCMKREFLFLSIL 4233661 9****9865.***************************************************************************** PP Transposase_21 90 ipGpkqpgkdidvflepLieeLkeLweeGvetyDaskkenFtlraallwtinDlpalgnlsgqstkGklacpiCleetkskrlkkgk 176 +pGp++p++++dvfl+pLi+eL+ Lw+eGv +yD+s k+nF +ra+l+wti+D+pa+g+lsg++t+G+l+cp+C+++ ++++lk+gk Chr1_2 4233662 VPGPEHPRRSLDVFLQPLIHELQLLWSEGVVAYDVSLKNNFVMRAVLMWTISDFPAYGMLSGWTTHGRLSCPYCQDTIDAFQLKHGK 4233748 *************************************************************************************** PP Transposase_21 177 kvvylg.hrrflpakhpfrk 195 k ++++ hrrflp++h++ Chr1_2 4233749 KSCWFDcHRRFLPKNHSYSF 4233768 ****************9975 PP == domain 2 score: 309.3 bits; conditional E-value: 1.1e-95 Transposase_21 2 emrwhkeerkkdgklrhpaDgeaWkkfdekypeFakdaRnvrlgLstDGfnPfgklsssyslWpvllvpynlppelcmkeenillsl 88 +mrwh+e+++k+g+++hp+D+++W+ f+e +p+Fa+++Rnv+lgL+tDGfnPfg+ s+++slWpv+l+pynlpp +cm++e+++l++ Chr1_2 4377628 AMRWHAEHQSKEGEMNHPSDAAEWRYFQELHPRFAEEPRNVYLGLCTDGFNPFGM-SRNHSLWPVILTPYNLPPGMCMNTEYLFLTI 4377713 7****************************************************87.888**************************** PP Transposase_21 89 lipGpkqpgkdidvflepLieeLkeLweeGvetyDaskkenFtlraallwtinDlpalgnlsgqstkGklacpiCleetkskrlkkg 175 l Gp++p++++dvfl+pLieeLkeLw +Gv++y++s ++nF+l+a+llwti+D+pa+++lsg++t+Gkl+cp+C+e+tks++l g Chr1_2 4377714 LNYGPNHPRASLDVFLQPLIEELKELWCTGVDAYEVSLSQNFNLKAVLLWTISDFPAYNMLSGWTTHGKLSCPVCMESTKSFYLPIG 4377800 *************************************************************************************** PP Transposase_21 176 kkvvylg.hrrflpakhpfrknkksfdgk..eeeeeapkelsgeevle 220 +k+++++ hrrflp+ hp r+nkk+f + +++e +p++l+ge+v+ Chr1_2 4377801 RKTCWFDcHRRFLPHGHPSRRNKKDFLKGrdASSEYPPESLTGEQVYY 4377848 **************************988667788899*****99975 PP == domain 3 score: 63.1 bits; conditional E-value: 2.1e-20 Transposase_21 135 allwtinDlpalgnlsgqstkGklacpiCleetkskrlkkgkkvvylg.hrrflpakhpfrknkksf.dgkeeeeeapkelsgeevl 219 +l+wti+D+ a+ +lsg++t G+lacp+C +et +++lk+g+k+++++ hr flp++h++r++k++f +g+++++ + + l+ ee++ Chr1_2 4577881 VLMWTISDFLAYRKLSGWTTYGRLACPYCWDETYAFQLKNGRKISWFDcHRCFLPMNHSYRQDKENF*KGRVVSDIPLQLLTCEELW 4577967 69*****************************************************************99999999888888888888 PP Transposase_21 220 eelkk 224 + +k+ Chr1_2 4577968 NIVKS 4577972 87775 PP == domain 4 score: 121.6 bits; conditional E-value: 2.6e-38 Transposase_21 104 lepLieeLkeLweeGvetyDaskkenFtlraallwtinDlpalgnlsgqstkGklacpiCleetkskrlkkgkkvvylghrrflpak 190 lepLie+L +Lw+ G tyDa++k+ Ftl+a+llwti+D+pa+gnl+g+++kGk+ cp C ++t+s+ lk ++k+vy+ hr+ lp + Chr1_2 5244763 LEPLIEDLCQLWNYGELTYDAYNKTLFTLKAMLLWTISDFPAYGNLVGCKVKGKMGCPLCGKNTDSRCLKFSRKHVYMSHRKGLPPS 5244849 89************************************************************************************* PP Transposase_21 191 hpfrknkksfdgkeeeeeapkelsgeevleelkk 224 h++r +k++fdg++e+ ++++ +s+++++++lk Chr1_2 5244850 HTYRGKKSWFDGQAEHGRKRRIFSSHDIFQNLKI 5244883 ******************************9986 PP >> RVT_1 Reverse transcriptase (RNA-dependent DNA polymerase) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 132.3 0.1 1.6e-41 4.7e-41 5 207 .. 3510746 3510975 .. 3510742 3510994 .. 0.92 2 ! 51.1 0.0 1.1e-16 3.3e-16 119 213 .. 3574479 3574605 .. 3574468 3574606 .. 0.95 3 ! 135.4 0.0 1.8e-42 5.2e-42 3 201 .. 4337182 4337409 .. 4337180 4337429 .. 0.90 4 ! 59.5 0.0 3e-19 8.6e-19 95 203 .. 4475929 4476052 .. 4475926 4476079 .. 0.92 5 ! 43.3 0.0 2.7e-14 7.6e-14 1 213 [. 4609654 4609813 .. 4609654 4609814 .. 0.96 6 ! 96.1 0.2 1.9e-30 5.5e-30 1 171 [. 4698283 4698481 .. 4698283 4698483 .. 0.95 7 ! 36.9 0.0 2.4e-12 6.9e-12 5 213 .. 5061362 5061518 .. 5061350 5061519 .. 0.88 8 ! 49.8 0.0 2.8e-16 8.1e-16 6 213 .. 5197655 5197810 .. 5197650 5197811 .. 0.92 9 ! 113.0 0.0 1.3e-35 3.6e-35 58 202 .. 8151975 8152134 .. 8151959 8152149 .. 0.93 Alignments for each domain: == domain 1 score: 132.3 bits; conditional E-value: 1.6e-41 RVT_1 5 g....tgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslht...........ikalnklsgskwllklDlkkaFdsi..phdp 82 + ++yRpi+l++v +ki++k+l+ rL+ +l+ ++s+++ +f pgr + + +k+ +++s+s +++k+D++ka+d++ + + Chr1_2 3510746 TnpetFSDYRPIALCNVLYKIISKCLVERLKGHLDAIVSDSQAAFIPGRLVNDnvmiahemmhsLKTRKRVSQSYMAVKTDVSKAYDRVe*N--F 3510838 45556799********************************************9***********888899******************9333..7 PP RVT_1 83 llkkltafglpqrfirlikkllstrsravylegek.geiyesrglpqGsvlSPllfnlflheldkflrkaf.............kprllyvrYaD 163 l ++++fg+++++i++i+ +++++++v +++ g i+++rg++qG++lSP+lf l+++ l++ +++++ p+++++++aD Chr1_2 3510839 LETTMRLFGFSETWIKWIMGAVKSVNYSVLVNSIPhGTIQPQRGIRQGDPLSPYLFILCVDILSHLIKNRVaegdirgirigngVPGVTHLQFAD 3510933 999*******************************55*********************************************************** PP RVT_1 164 Diligaks.keeleeileeieeflkelglelnpeKtkithksdev 207 D l++++s +++++++++ + + +g+++n++K+ it + Chr1_2 3510934 DSLFFCQSnVRNCQALKDVFDVYKYYSGQKINMSKSMITF---GS 3510975 ********888899999999999999************95...33 PP == domain 2 score: 51.1 bits; conditional E-value: 1.1e-16 RVT_1 119 eiyesrglpqGsvlSPllfnlflheldkflrkaf............kprllyvrYaDDiligaks.keeleeileeieeflkelglelnpeKtki 200 +iy+srgl+qG+ lSP+lf+ ++ l+k l ka+ + +l+++++aDD+++++++ ++ +e i++ + +f+k + l++++eK+++ Chr1_2 3574479 YIYSSRGLRQGCSLSPYLFVVSMDVLSKLLDKAAgqrkfgyhprckQIGLTHLSFADDLMVLSDGkVRSIEGIVDVFDTFAKCSDLKISMEKSTV 3574573 799**************************************************************8888************************** PP RVT_1 201 th...................ksdevkflGyv 213 + + +v++lG++ Chr1_2 3574574 YLaglshttrqevidrfsfavGTLPVRYLGLP 3574605 *******************999999***9986 PP == domain 3 score: 135.4 bits; conditional E-value: 1.8e-42 RVT_1 3 kkg....tgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslht..........ikalnklsgskwllklDlkkaFdsiphdpl 83 k +++yRpisl++v +k ++k+la+rL++ l+ ++se++ +f pgr +++ ++++l++ ++ klD++kaFd++++++l Chr1_2 4337182 KVEnpleVKDYRPISLCNVAYKLISKILADRLQPWLQFIISENQTAFIPGRMIIDnvliahelihSLQTRNLKQPYMAFKLDISKAFDKVEWSFL 4337276 555567789******************************************************984445789*********************** PP RVT_1 84 lkkltafglpqrfirlikkllstrsravylegek.geiyesrglpqGsvlSPllfnlflheldkflrkaf.............kprllyvrYaDD 164 +++++g+ +r++ +i+++++t++++v ++g+ g i+++rg++qG+++SP+l+ l+ ++l+ +r + +p + ++++aDD Chr1_2 4337277 EAIMKKLGFAERWCAWIMECITTVTYSVLVNGSPiGNILPQRGIRQGDPISPYLYLLYSERLSALIRHNIhqgklhgfkasrnGPPISHLLFADD 4337371 *********************************88*********************************99************************* PP RVT_1 165 iligaks.keeleeileeiee.flkelglelnpeKtkit 201 l+++k +ee+ ++l+ +++ + ++g+++n +K+ +t Chr1_2 4337372 SLLFCKAtVEECTALLQVLNQ*HA-ASGQQVNFQKSAVT 4337409 *******9999*999998876443.24555555555555 PP == domain 4 score: 59.5 bits; conditional E-value: 3e-19 RVT_1 95 rfirlikkllstrsravyl.egek.geiyesrglpqGsvlSPllfnlflheldkflrkaf.............kprllyvrYaDDiligaks.ke 173 +ir+i++ +++ s l +ge+ +++++ rgl+qG++lSP+lf+l++++l++ +++ + +p+l +v++aDD++++++ ++ Chr1_2 4475929 VWIRWIMQSVTGPS-MSLL*NGERtEGFKPLRGLRQGDPLSPYLFVLCMERLCHLIEDSVmkkkwkpislsrgGPQLSHVCFADDLILFTEAsVT 4476022 58999999996655.5567999966*********************************99********************************9** PP RVT_1 174 eleeileeieeflkelglelnpeKtkithk 203 +++ i + +e+f+ +++++++ eK+ki+ + Chr1_2 4476023 QIRIIRSVLERFCGASRQKVSSEKSKIFFS 4476052 ***************************974 PP == domain 5 score: 43.3 bits; conditional E-value: 2.7e-14 RVT_1 1 ipkkgtgkyRp.isllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpq 94 ++kk+ g++R+ i d++ l++++ k ++p + ++++ l++l+g+++++k+Dl +++++ p+++++ taf + Chr1_2 4609654 VKKKD-GSFRLcI-----DYRGLNRVTMK---------NKYPLPRIDEL--------LDQLRGATCFSKIDLTSGYHQFPIAEADVRNTAFRTR- 4609724 689*9.*****88.....***********.........***********........999******************************9999. PP RVT_1 95 rfirlikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheld.kflrkafkprllyvrYaDDiligakskeeleeileeieeflke 188 + +e+ ++p+G+ ++P+ f+++++ ++ +fl + +++ ++DDil+++ks+ee+ +l+++ e l+e Chr1_2 4609725 -----------------------YGPFEFVVMPFGLTNAPTAFMRLMNSVF*EFLDE------FVIIFIDDILMYSKSPEEHGVHLRRVMEKLRE 4609790 .......................789*******************************......9******************************* PP RVT_1 189 ..lglelnpeKtkithksdevkflGyv 213 l +l +K++++ ++e+ flG+ Chr1_2 4609791 *kLFAKL--SKCSFW--QREMGFLGHI 4609813 *777776..69****..********85 PP == domain 6 score: 96.1 bits; conditional E-value: 1.9e-30 RVT_1 1 ipkkg....tgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslht.........ikalnklsgskwllklDlkkaFdsiphdp 82 ipkk +++yRpis+++v++k++ k++a+ L+++l++ + ++ +f + r l++ ++++++ ++ +++k+D++kaFds++++ Chr1_2 4698283 IPKKAttneMKDYRPISCCNVIFKVILKIIANPLKRVLPNFVVGNQSAFVQDRLLIEnvllatelvKDYHKESVSTGCAIKIDISKAFDSVQWSV 4698377 788888999********************************************************99999999999******************* PP RVT_1 83 llkkltafglpqrfirlikkllstrsravylegek.geiyesrglpqGsvl..SPllfnlflheldkflrkaf............kprllyvrYa 162 l k+l+a+++p fi++i+ +++t+s++v+++ge g++ + rgl+q + l S +lf+ ++ l+k l ka+ + +l+++++a Chr1_2 4698378 LRKVLEAMKFPLFFIHWIMLCVTTTSFSVQVNGELvGYFNSVRGLRQRCSLslSLYLFVVSMDVLSKLLDKAVglrkfgyhprckNIGLTHLSFA 4698472 **********************************99***********99761157889999**********99********************** PP RVT_1 163 DDiligaks 171 D + +++++ Chr1_2 4698473 DNLKVLSDG 4698481 **9999987 PP == domain 7 score: 36.9 bits; conditional E-value: 2.4e-12 RVT_1 5 gtgkyRp.isllsvddkilqkllakrLeeileplfsepshgfrpgrslht..ikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqrf 96 ++++ R+ i d+++l+++++k ++ p + ++++ l + ++ ++ +lD ++F++ip++p ++ t f++p Chr1_2 5061362 TITGHRMcI-----DYRKLNAASRK---------DHFPLPFIDQM--L-Er*ANH-------PYYCFLDGYSGFFQIPIHPNDQEKTTFTCP--- 5061429 467788877.....99999999999.........88888888888..3.335444.......89****************************... PP RVT_1 97 irlikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflkelgl 191 +++ s+++p+G+ ++P+ f++++ ++++l + ++ +++DD+ ++ s + + l ++ + ++e +l Chr1_2 5061430 ---------------------YGTFASKRMPFGLCNAPATFQRCMTSILSDLIEE-----MVEVFMDDFSVYGPSFSSCLLNLGRVLTRCEETNL 5061498 .....................789*****************************96.....7********************************** PP RVT_1 192 elnpeKtkithksdevkflGyv 213 ln eK++++ +e + G++ Chr1_2 5061499 VLNWEKCHFM--VKEGIVFGHK 5061518 **********..7777777776 PP == domain 8 score: 49.8 bits; conditional E-value: 2.8e-16 RVT_1 6 tgkyRp.isllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqrfirl 99 +++ R+ i d+++l+++++k + p ++++ l++ls++k++ lD ++F++ip++p ++ t f++p Chr1_2 5197655 VTGHRMcI-----DCRKLNAATRK---------NHFPLQFIDQL--------LERLSNHKYYCVLDGYSGFFQIPIHPDDQEKTMFTCP------ 5197721 57789977.....***********.........77666666666........899**********************************...... PP RVT_1 100 ikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflkelgleln 194 +++ ++++p+G+ ++P++f +++ ++ ++ + ++ +++DD+ ++ +s e + e l+++ + ++e +l ln Chr1_2 5197722 ------------------YGTFAYSRMPFGLCNAPAIFERCMMSIFTDMIEN-----FIEVFMDDFSVYGSSFEACLENLRKVLARCEEKNLVLN 5197793 ..................789****************************995.....7************************************* PP RVT_1 195 peKtkithksdevkflGyv 213 eK++++ +e +lG++ Chr1_2 5197794 WEKCHFM--VQEGIVLGHK 5197810 *******..9999999986 PP == domain 9 score: 113.0 bits; conditional E-value: 1.3e-35 RVT_1 58 nklsgskwllklDlkkaFdsiphdpllkkltafglpqrfirlikkllstrsravylegek.geiyesrglpqGsvlSPllfnlflheldkflrka 151 +k s+ ++llklDl+ka+d+i++d+l+ +l a g+++ ++ +i++++s+ ++ ++gek + +++ rgl+qG+ lSP+lf+l++++l++ +++ Chr1_2 8151975 KKGSKGWMLLKLDLEKAYDRIRWDFLSDTLVAAGFSEVWVTWIMQCVSGPDMSLLWNGEKtTPFKPLRGLRQGDLLSPYLFVLCMERLCHLIERS 8152069 23455599***************************************************77********************************** PP RVT_1 152 f.............kprllyvrYaDDiligaks.keeleeileeieeflkelglelnpeKtkith 202 + +p+l ++++aDD++++a+ +e+++ + + +e+f+ ++g++++ eK+ki+ Chr1_2 8152070 InakqwkpinlsrgGPKLSHICFADDLILFAEAsVEQVQIVRRVLEAFCTASGQKVSLEKSKIFF 8152134 *********************************9*****************************96 PP >> Retrotrans_gag Retrotransposon gag protein # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 39.3 0.0 5.2e-13 1.5e-12 1 95 [. 4333678 4333769 .. 4333678 4333770 .. 0.94 2 ! 22.3 0.2 1.1e-07 3.1e-07 38 95 .. 4598675 4598732 .. 4598674 4598733 .. 0.94 3 ! 60.4 0.2 1.4e-19 3.9e-19 1 92 [. 4694961 4695051 .. 4694961 4695051 .. 0.97 4 ! 33.2 0.0 4.3e-11 1.2e-10 1 94 [. 4736446 4736538 .. 4736446 4736539 .. 0.98 5 ! 42.8 0.0 4.3e-14 1.2e-13 1 94 [. 4742962 4743053 .. 4742962 4743055 .. 0.95 6 ! 59.1 0.2 3.6e-19 1e-18 2 95 .. 4798913 4799005 .. 4798912 4799006 .. 0.98 7 ! 53.6 0.0 1.8e-17 5.2e-17 1 94 [. 4833886 4833978 .. 4833886 4833980 .. 0.97 8 ! 22.9 0.0 7.2e-08 2.1e-07 2 92 .. 5054160 5054247 .. 5054159 5054250 .. 0.90 9 ! 59.9 0.0 1.9e-19 5.6e-19 1 94 [. 5060431 5060523 .. 5060431 5060525 .. 0.98 10 ! 23.1 0.0 6e-08 1.7e-07 2 92 .. 5126717 5126804 .. 5126716 5126807 .. 0.93 11 ! 58.5 0.0 5.6e-19 1.6e-18 1 94 [. 5164691 5164783 .. 5164691 5164785 .. 0.98 12 ! 26.8 0.0 4.2e-09 1.2e-08 2 72 .. 5182705 5182774 .. 5182704 5182783 .. 0.95 13 ! 29.8 0.1 4.7e-10 1.4e-09 1 91 [. 5348990 5349083 .. 5348990 5349084 .. 0.93 14 ! 45.2 0.1 7.5e-15 2.2e-14 1 91 [. 5399617 5399706 .. 5399617 5399707 .. 0.97 15 ! 35.5 0.0 8.4e-12 2.4e-11 2 95 .. 5824773 5824863 .. 5824772 5824864 .. 0.97 16 ! 62.7 0.1 2.7e-20 7.8e-20 12 96 .] 5840418 5840525 .. 5840414 5840525 .. 0.83 Alignments for each domain: == domain 1 score: 39.3 bits; conditional E-value: 5.2e-13 Retrotrans_gag 1 klastsLegrAkswlkslvarsida..sesWkdlkkafrktflpserkdqleeelrslrQgtesvreYyerfktladqldevvteea 85 k+++++++++A++w++s+ ++ i +++W +++k ++++f++ d+ +el++l++ t + eY+++f+ + +l+ +ee+ Chr1_2 4333678 KMVAIHFDSHAATWHHSFIQSGIGLdvFFNWPEYVKLLKDRFED--ACDDPMAELKKLQE-TDGIVEYHQQFELIKVRLN--LSEEY 4333759 6899****************************************..55555556******.*******************..***** PP Retrotrans_gag 86 kiekflaGLn 95 +++ +laGL+ Chr1_2 4333760 LVSVYLAGLR 4333769 *********8 PP == domain 2 score: 22.3 bits; conditional E-value: 1.1e-07 Retrotrans_gag 38 ktflpserkdqleeelrslrQgtesvreYyerfktladqldevvteeakiekflaGLn 95 +tf+ps+++++l +lr+l+Qg++ v+eYy++++tl+ ++d +++ ea +++fl Ln Chr1_2 4598675 RTFVPSHYHRELYFKLRNLTQGNRYVEEYYKEMETLMLRADISEDREATMSRFLGDLN 4598732 69***************************************99999*******98776 PP == domain 3 score: 60.4 bits; conditional E-value: 1.4e-19 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 +l+++sL ++A++w ksl + si+ sW+d+kkaf+++f++++r+++l+++++ ++Q ++e++ e +erfk + +q+++ ++++++ Chr1_2 4694961 RLFPFSLGDKAHQWEKSLPQGSIT---SWNDCKKAFLAKFFSNSRTARLRNDISGFTQtNNETFYEAWERFKGYQTQCPHhGFSKAS 4695044 5899********************...************************************************************ PP Retrotrans_gag 86 kiekfla 92 +++++++ Chr1_2 4695045 LLSTLYR 4695051 **99875 PP == domain 4 score: 33.2 bits; conditional E-value: 4.3e-11 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 kl++ sL g+++swlk+l+ s + s + +k af+++f++++++++l+++l++++Q + e ++ + rfk++ +++++ +++e + Chr1_2 4736446 KLFPYSLAGDSASWLKQLKIGSLK---SLRSIKIAFLNNFYDDAKSEKLRNKLSTFTQgPVEDFKAAWVRFKEYQRDCPHhGFNEVQ 4736529 68999*******************...************************************************************ PP Retrotrans_gag 86 kiekflaGL 94 ++ +f +G+ Chr1_2 4736530 LLGTFFNGV 4736538 *******97 PP == domain 5 score: 42.8 bits; conditional E-value: 4.3e-14 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 +l+++sL ++ + w k+l +si+ +W+d+kkaf+++f++++ +++l++e+ ++Q es++e +erfk l++ +++ ++t+++ Chr1_2 4742962 RLFPFSLGDKTHIWEKNLPHDSIT---TWDDCKKAFLTKFFSNAITARLKNEIYGFSQkTGESFCEAWERFKPLCS-CPHhGFTKAS 4743044 5899********************...9*********************************************976.5555****** PP Retrotrans_gag 86 kiekflaGL 94 +++++++G+ Chr1_2 4743045 LLNTLYRGV 4743053 ********7 PP == domain 6 score: 59.1 bits; conditional E-value: 3.6e-19 Retrotrans_gag 2 lastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteeak 86 l+ +sL ++A+ wlksl + + sW+d+k af+ +++ ++r++ l+++++s++Q tes++e +erfk + +++++ +++ +++ Chr1_2 4798913 LFIFSLADKAHRWLKSLDLVNLR---SWEDYKAAFLGQYFTQSRISILRNKISSFQQgVTESFHEAWERFKDYYRECPHhGFPRATL 4798996 7999*******************...************************************************************* PP Retrotrans_gag 87 iekflaGLn 95 i++f++G+n Chr1_2 4798997 ISTFYRGVN 4799005 *******98 PP == domain 7 score: 53.6 bits; conditional E-value: 1.8e-17 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 +l+++sL ++A+ w k+l + i+ +W+d+kkaf+++fl+++r+++l++e++ + Q es++e +erfk + +q+++ ++t+++ Chr1_2 4833886 RLFPFSLGDKAHIWEKNLPHDLIT---TWDDCKKAFLSKFLSNARTARLRNEISGFLQnTGESFCEAWERFKGYTNQCPHhGFTKAS 4833969 5899********************...9******************************999************************** PP Retrotrans_gag 86 kiekflaGL 94 ++++++ G+ Chr1_2 4833970 LLSTLYGGV 4833978 ******996 PP == domain 8 score: 22.9 bits; conditional E-value: 7.2e-08 Retrotrans_gag 2 lastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdql..eeelrslrQ.gtesvreYyerfktladqldevvteea 85 l++ +L+g+A+ wl++l+ + ++ s+++l++ f+k++ +d ++l+sl+Q ++e +r+++++f++ ++++ ++++ + Chr1_2 5054160 LFVEHLKGPALDWLSRLKGNFVN---SFQELSTLFLKQYSV--LIDPCt*DADLWSLSQqPNEPLRDFLAKFRSTLAKVE-GFNDVE 5054240 899********************...***************..8888845599**************************9.588877 PP Retrotrans_gag 86 kiekfla 92 +++++ + Chr1_2 5054241 ALSALKK 5054247 7777655 PP == domain 9 score: 59.9 bits; conditional E-value: 1.9e-19 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 +l+++sL ++A+ w k+l +si+ +W+d++kaf+++f++++r+++l++e++ ++Q es++e +erfk + +q+++ ++t+++ Chr1_2 5060431 RLFPFSLGDKAHIWEKNLPHDSIT---TWDDCRKAFLSKFFSNARTARLRNEISGFSQkTGESFCEAWERFKGYTNQCPHhGFTKAS 5060514 5899********************...9*********************************************************** PP Retrotrans_gag 86 kiekflaGL 94 +++++++G+ Chr1_2 5060515 LLSTLYRGV 5060523 ********7 PP == domain 10 score: 23.1 bits; conditional E-value: 6e-08 Retrotrans_gag 2 lastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqldevvteeaki 87 l++ +L+g A+ +++l+ +s+d ++++l++ f++++ ++ ++l+sl+Q ++e +r+++++ ++ ++++ ++++ a++ Chr1_2 5126717 LFVEHLKGLALDSFSRLEGNSVD---TFQNLSTLFLEQYSVLIDPCTSDADLWSLSQqPNEPLRDFLAKIRSTLAKIE-GINDVAAL 5126799 899********************...9*************************************************99.58888888 PP Retrotrans_gag 88 ekfla 92 +++ + Chr1_2 5126800 SALKK 5126804 77655 PP == domain 11 score: 58.5 bits; conditional E-value: 5.6e-19 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 +l+++sL ++A+ w k+l +si+ +W+d+kkaf+++f++++r+++l++e++ ++Q es++e +erfk + +q+++ ++t++ Chr1_2 5164691 RLFPFSLGEKAHIWEKNLPHDSIT---TWDDCKKAFLSKFFSNARTARLRNEISGFTQkTGESLCEAWERFKGYTNQCPHhGFTKAF 5164774 5899********************...9*********************************************************** PP Retrotrans_gag 86 kiekflaGL 94 +++++++G+ Chr1_2 5164775 LLSTLYRGV 5164783 ********7 PP == domain 12 score: 26.8 bits; conditional E-value: 4.2e-09 Retrotrans_gag 2 lastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerf.kt 72 l++ +L+g+ + w+++l+ +s+d s+++l++ f+k++ ++ +l+sl+Q ++e +++++++f t Chr1_2 5182705 LFVEHLKGPVLDWFSRLEGNSVD---SFQELSTLFLKQYSVLIDPGTSDVDLWSLSQqPNEPLSDFLTKF*ST 5182774 899********************...*******************************************9555 PP == domain 13 score: 29.8 bits; conditional E-value: 4.7e-10 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqle....eelrslrQ.gtesvreYyerfktladqlde.vv 81 kl++ sL g+A+sw k+l+a s + +W+ +k af+++f++++++++l+ ++l++++Q + e ++ + rfk++ +++++ ++ Chr1_2 5348990 KLFPYSLAGEAASWQKQLKAGSLK---TWRSIKIAFLNNFYDDAKSEELRkphlNKLSTFTQgPVEAFKVAWVRFKEYQRDCPHhGF 5349073 68999*******************...9*****************99998555569******************************* PP Retrotrans_gag 82 teeakiekfl 91 +e +++ +f Chr1_2 5349074 SEVQLLGTFF 5349083 **99999886 PP == domain 14 score: 45.2 bits; conditional E-value: 7.5e-15 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 +l+++s+ ++A+ w k+l +sid +W+d+kkaf+++f ++ r+++l+++++ ++Q +++s++e +erfk + +q+++ + ++ + Chr1_2 5399617 RLFPFSFGDKAHLWEKTLPVESID---TWDDCKKAFLAKFSSNLRTARLRNKISGFTQkNSQSFSETWERFKGYTTQCPHhGLKKTS 5399700 5899********************...9*********************************************************99 PP Retrotrans_gag 86 kiekfl 91 ++++++ Chr1_2 5399701 LLSTLY 5399706 999887 PP == domain 15 score: 35.5 bits; conditional E-value: 8.4e-12 Retrotrans_gag 2 lastsLegrAkswlkslvarsida..sesWkdlkkafrktflpserkdqleeelrslrQgtesvreYyerfktladqldevvteeak 86 +ast ++g+A++w+ksl +++ ++W+ +k + ++f + + d+ +el++l++ t+ ++eY+++f+ l+++++ +e+++ Chr1_2 5824773 IASTLCDGAAAKWYKSLFESDFGVklLSNWNMYKLLLEEHFAE--VLDDPISELKQLKE-TNGIEEYHKKFELLRARVN--LSEDYL 5824854 899*******************999******************..99999999******.*******************..****** PP Retrotrans_gag 87 iekflaGLn 95 ++ +l GL+ Chr1_2 5824855 VRVYLDGLH 5824863 ********7 PP == domain 16 score: 62.7 bits; conditional E-value: 2.7e-20 Retrotrans_gag 12 kswlkslvarsida........sesWkdlkkafrktflpserkdqleeelrslrQgtesvreYyerfktladqldevvte....... 83 kswl ++v+ +i++ s++W+dl ++f+ t+lp +++++++e ++++rQgt s++eYy+r+ktl+dql +te Chr1_2 5840418 KSWLLNSVSPQIYRsilrmndaSDIWRDLHSRFNVTNLP-RTYNLTQE-IQDFRQGTLSLSEYYTRLKTLWDQLE--STEelddpci 5840500 45555555555555555555559****************.66665555.**************************..5555788*** PP Retrotrans_gag 84 ............eakiekflaGLne 96 +aki+k+laGLn+ Chr1_2 5840501 cgkamrlqqkaeQAKIVKLLAGLND 5840525 ***********************96 PP >> MULE MULE transposase domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 51.0 0.0 1.2e-16 3.5e-16 2 85 .. 2818482 2818564 .. 2818481 2818564 .. 0.93 2 ! 41.6 0.0 1.1e-13 3.1e-13 22 92 .. 3963061 3963133 .. 3963051 3963134 .. 0.93 3 ! 58.4 0.0 6.3e-19 1.8e-18 2 92 .. 4238650 4238739 .. 4238649 4238740 .. 0.94 4 ! 69.0 0.0 3.1e-22 8.9e-22 1 92 [. 4273918 4274008 .. 4273918 4274009 .. 0.95 5 ! 40.8 0.2 1.9e-13 5.5e-13 26 93 .] 4535832 4535901 .. 4535811 4535901 .. 0.89 6 ! 39.6 0.0 4.6e-13 1.3e-12 1 76 [. 5304044 5304118 .. 5304044 5304123 .. 0.94 7 ! 64.2 0.0 9.3e-21 2.7e-20 1 92 [. 5335891 5335981 .. 5335891 5335982 .. 0.91 8 ! 70.0 0.0 1.4e-22 4.1e-22 1 92 [. 5648355 5648445 .. 5648355 5648446 .. 0.96 9 ! 55.1 0.0 6.6e-18 1.9e-17 17 92 .. 5679215 5679292 .. 5679199 5679293 .. 0.92 10 ! 56.2 0.0 3e-18 8.5e-18 3 92 .. 6522349 6522436 .. 6522347 6522437 .. 0.94 11 ! 28.2 0.0 1.6e-09 4.6e-09 7 92 .. 7946279 7946368 .. 7946273 7946369 .. 0.90 12 ! 53.4 0.0 2.3e-17 6.5e-17 9 92 .. 8387012 8387096 .. 8387004 8387097 .. 0.89 Alignments for each domain: == domain 1 score: 51.0 bits; conditional E-value: 1.2e-16 MULE 2 tyktgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevfpdarhrlCl 85 t+ + y g+l++a + d +++ +plaf++++sE+ sw wfle+lk ++++ +v+i+D++++++ka+k+v+p+a h C+ Chr1_2 2818482 THLKTVYGGMLVIAT---AQDPNHHHYPLAFGIIDSEKDVSWIWFLEKLKTVYSDvpGLVFISDRHQSIKKAVKTVYPNALHAACI 2818564 788889999999966...999999*****************************977678**************************6 PP == domain 2 score: 41.6 bits; conditional E-value: 1.1e-13 MULE 22 daddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevfpdarhrlClwHilrnl 92 d++ +++p+afa+v+s++ sw wfl++l++ + + +v+++D+ +++a+ ++ +p a+h lC +H+++nl Chr1_2 3963061 DGNFNLYPIAFAIVDSKNDASWDWFLKCLLNIIPDenDLVFVSDRAASIASGLSGNYPLAHHGLCTFHLQKNL 3963133 6777899**************************956799*********************************7 PP == domain 3 score: 58.4 bits; conditional E-value: 6.3e-19 MULE 2 tyktgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevfpdarhrlClwHilrnl 92 t g+ykg ll+ +++ d++ ++fp+af++v+ E+ sw wf+e+l + + + +++++D++++++k ++ v+p a+h C++H+ rnl Chr1_2 4238650 TQLVGPYKGCLLI---ACAQDGNFQIFPIAFGVVDGETDASWAWFFEKLAEIIPDsdDLMIVSDRHSSIYKGLSVVYPRAHHGACAVHLERNL 4238739 5567999*99999...55***********************************967899*********************************8 PP == domain 4 score: 69.0 bits; conditional E-value: 3.1e-22 MULE 1 gtyktgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevfpdarhrlClwHilrnl 92 gt+ +gkykg ll+a+ g da+ +++plafa+v+sE+ + wtwf+ +l++ + + +++++D++ +++ +k+vfp+a+h C+ H+ rn+ Chr1_2 4273918 GTHLKGKYKGVLLTAS---GQDANFQVYPLAFAVVDSENDDAWTWFFTKLERIIADnnTLTILSDRHESIKVGVKKVFPQAHHGACIIHLCRNI 4274008 79************77...********************************999844688*********************************8 PP == domain 5 score: 40.8 bits; conditional E-value: 1.9e-13 MULE 26 egfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevfpdarhrlClwHilrnlk 93 +++ +af++++sE+ swtwf+++l l +v+++ +++++ +a+++v+p a+h C++H+++n+k Chr1_2 4535832 QIMHVAFGVMDSENDVSWTWFFNQLFSILPHshDLVFVSYRHNSIHSALRTVYPLAKHGACAVHLYQNFK 4535901 55679*********************999856899*********************************96 PP == domain 6 score: 39.6 bits; conditional E-value: 4.6e-13 MULE 1 gtyktgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevf 76 gt+ g+y g l a+ + da+ ++fp+ f++v+sE+ + wtwf+e+l++a+ + +v+++D++++++++i++v+ Chr1_2 5304044 GTHLRGRYGGCLIAAS---AQDANFQVFPITFGIVNSENDDAWTWFMERLTEAIPDdpDLVFVSDRHSSIYASIRKVI 5304118 69999*********77...9**********************************967677****************96 PP == domain 7 score: 64.2 bits; conditional E-value: 9.3e-21 MULE 1 gtyktgkykgallsak...vlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevfpdarhrlClwHilr 90 gt+ tgkyk+ ll+a+ + + ++fplafa+v+sE+ eswtwf+++l++ + + +++i+D++++++ a k+vfp a+h C++H+ r Chr1_2 5335891 GTHLTGKYKEVLLTASg*dANF------QVFPLAFAVVDSENDESWTWFFQKLERIIADskSLSIISDRHPSIYIAKKNVFPLAHHGACIVHLAR 5335979 6899999999999988665444......899***********************999956799******************************** PP MULE 91 nl 92 n+ Chr1_2 5335980 NV 5335981 *8 PP == domain 8 score: 70.0 bits; conditional E-value: 1.4e-22 MULE 1 gtyktgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevfpdarhrlClwHilrnl 92 gt+ +gkykg ll+++ g da+ +++pl+fa+v+sE+ eswtwf+ +l++ + + +++++D+++++ a+k+vfp+a+h C+ H+ rn+ Chr1_2 5648355 GTHLKGKYKGVLLTSS---GQDANFQVYPLGFAVVDSENDESWTWFFTKLERIIADskTLTILSDRHSSILVAVKRVFPQANHGACIIHLCRNI 5648445 79************88...********************************999856689*********************************8 PP == domain 9 score: 55.1 bits; conditional E-value: 6.6e-18 MULE 17 vlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevfpdarhrlClwHilrnl 92 ++++ d++ ++fplaf++v+ E+ sw wf+e+l + + + +++++D++++++k ++ v+p+a+h C++H+ rn+ Chr1_2 5679215 IACAQDGNFQIFPLAFGVVDGETDASWIWFFEKLSEIVPDtdDLMIVSDRHSSIYKGVSVVYPKANHGACIVHLERNI 5679292 6899*********************************9967899*********************************8 PP == domain 10 score: 56.2 bits; conditional E-value: 3e-18 MULE 3 yktgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng.pvvvitDgdkglakaikevfpdarhrlClwHilrnl 92 y +gk++ +l++ ++gv++++++++l ++++ E+ es+ w+l+ ++ ++++ p++++tD++k l++ai++vfp ++ r+ l Hi+r++ Chr1_2 6522349 YISGKFEIPLVT---FTGVNHHGKTTLLSCGFLAGETMESYHWLLKVWLSVMKRsPQTIVTDRCKPLEAAISQVFPRSHQRFSLTHIMRKI 6522436 667888888888...89***********************************879**********************************97 PP == domain 11 score: 28.2 bits; conditional E-value: 1.6e-09 MULE 7 kykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevf.....pdarhrlClwHilrnl 92 ky+ +l++a+ +vda d+ f+lafa++ + s++sw+wfl ++++ +++ ++ i+ d+ l + i+e p+a+ r+Cl+H+l + Chr1_2 7946279 KYQWKLMIAS---AVDAADNFFLLAFAFTTELSTDSWRWFLSGIRERVTQrkGLCLISSPDPDLLAVINESGsqwqePWAYNRFCLRHLLSQF 7946368 6777777766...********************************999956799****************777788999**********9876 PP == domain 12 score: 53.4 bits; conditional E-value: 2.3e-17 MULE 9 kgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkaln...g.pvvvitDgdkglakaikevfpdarhrlClwHilrnl 92 kg+ l +vg dad++++p+a+a+v+ E+++sw wf e+lk +l g ++vi+D kgl++ +++++p+a+hr C++Hi++n+ Chr1_2 8387012 KGEILA---AVGRDADNRIYPIAWAIVRVEDNDSWAWFVEHLKTDLGlglGsLLTVISDKKKGLINVVADLLPQAEHRHCARHIYANW 8387096 445555...78***********************************98554788********************************98 PP >> Transposase_24 Plant transposase (Ptta/En/Spm family) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 63.0 0.1 2.9e-20 8.4e-20 53 121 .. 4209642 4209715 .. 4209639 4209716 .. 0.94 2 ! 62.7 0.0 3.5e-20 1e-19 50 121 .. 4379526 4379603 .. 4379525 4379605 .. 0.96 3 ! 45.0 0.1 1e-14 2.9e-14 1 51 [. 5047134 5047188 .. 5047134 5047190 .. 0.96 4 ! 71.7 0.1 6e-23 1.7e-22 39 121 .. 5047207 5047294 .. 5047201 5047296 .. 0.92 5 ! 137.4 0.7 3.1e-43 8.8e-43 2 139 .. 5098368 5098570 .. 5098367 5098571 .. 0.98 6 ! 137.4 0.7 3.1e-43 8.8e-43 2 139 .. 5131069 5131271 .. 5131068 5131272 .. 0.98 7 ! 38.2 0.1 1.3e-12 3.7e-12 1 49 [. 6559445 6559497 .. 6559445 6559501 .. 0.96 8 ! 54.7 0.1 1e-17 2.9e-17 55 121 .. 6559539 6559608 .. 6559534 6559609 .. 0.95 Alignments for each domain: == domain 1 score: 63.0 bits; conditional E-value: 2.9e-20 Transposase_24 53 ek..gktpdraevfieTHtkkDGtyvdekaeeiaekvkerlqereseseseasaesdgssr...edkneiflqv 121 ek ++tpd++e+++eTH+k+DGt++d+k+eei++kv++r++e+es+++s++++es+gs + ++kn+if++v Chr1_2 4209642 EKtgETTPDFLELLDETHRKADGTFIDGKSEEIYKKVTSRIEEEESHMCSGDNPESTGSCGlsvHAKNKIFVEV 4209715 334699*****************************************************99**********886 PP == domain 2 score: 62.7 bits; conditional E-value: 3.5e-20 Transposase_24 50 leeekgktpdraevfieTHtkkDGtyvdekaeeiaekvkerlqereseseseasaesdgssr......edkneiflqv 121 +ee++g++++ +evfieTHtk+DG++vd+k+e+ia+ +++++++r+s +e++asa+sdgssr +d++ ifl+v Chr1_2 4379526 QEEKLGRPVHLGEVFIETHTKSDGSFVDQKSEKIAQAYQQNVRDRLSALEASASAVSDGSSRppeltlDDYTAIFLEV 4379603 46777**********************************************************************997 PP == domain 3 score: 45.0 bits; conditional E-value: 1e-14 Transposase_24 1 dpevwktLvayWdtekakkrseknkkar....nglgihkHtsgsksfaqirkele 51 d+++wk++++yWdte+a +rs+ ++kar nglg+h+H sg+ks++ i++el Chr1_2 5047134 DSHIWKAMCEYWDTEEAIARSKIYSKARlsdhNGLGPHIHLSGPKSYQNIKHELV 5047188 689*************************************************985 PP == domain 4 score: 71.7 bits; conditional E-value: 6e-23 Transposase_24 39 gsksfaqirkeleeekgktpdraevfieTHtkkDGtyvdekaeeiaekvkerlqereseseseasaesdgssr......edkneifl 119 + k ++ + +e+e+g+t++ +evfi+THtk+DGtyvd+kae+i++++k++lqe++se+e+e+s++sdg+sr ed++ ifl Chr1_2 5047207 CIKPCSFLTS-QEKELGRTVSVGEVFIKTHTKPDGTYVDKKAEQIVKNYKKKLQEKLSEMEAETSNVSDGESRpreltiEDHTVIFL 5047292 5666666666.78899**********************************************************************9 PP Transposase_24 120 qv 121 +v Chr1_2 5047293 EV 5047294 87 PP == domain 5 score: 137.4 bits; conditional E-value: 3.1e-43 Transposase_24 2 pevwktLvayWdtekakkrseknkkar....nglgihkHtsgsksfaqirkeleeek............................gk 56 +++wk+++ayWdte+a++rs+ +++ar nglg+h+H+sgsks++qir+el + + gk Chr1_2 5098368 KTLWKEMTAYWDTEEAQERSQIYSNARmsdrNGLGPHIHFSGSKSYHQIRDELVSLLsvysfatli*cfstfl*lvffslqeeqlGK 5098454 799**************************************************99999999999*********************** PP Transposase_24 57 tpdraevfieTHtkkDGtyvdekaeeiaekvkerlqereseseseasaesdgssr......edkneif................... 118 t+++++vfi+THtk+DGtyvd+kae+iae ++++lq r se+e+easa+sdg+sr e++++if Chr1_2 5098455 TVSIGDVFIKTHTKPDGTYVDRKAEKIAELYQKNLQLRRSELEAEASAVSDGTSRtreltaEKCTTIFl*vtfyvspfsvfelsflf 5098541 *************************************************************************************** PP Transposase_24 119 ........lqvvgkdkkgrvyglGslqee 139 lq++++d++g +yg+Gsl+e+ Chr1_2 5098542 snlsfyytLQSTERDSRGVPYGVGSLKES 5098570 **************************997 PP == domain 6 score: 137.4 bits; conditional E-value: 3.1e-43 Transposase_24 2 pevwktLvayWdtekakkrseknkkar....nglgihkHtsgsksfaqirkeleeek............................gk 56 +++wk+++ayWdte+a++rs+ +++ar nglg+h+H+sgsks++qir+el + + gk Chr1_2 5131069 KTLWKEMTAYWDTEEAQERSQIYSNARmsdrNGLGPHIHFSGSKSYHQIRDELVSLLsvysfatli*cfstfl*lvffslqeeqlGK 5131155 799**************************************************99999999999*********************** PP Transposase_24 57 tpdraevfieTHtkkDGtyvdekaeeiaekvkerlqereseseseasaesdgssr......edkneif................... 118 t+++++vfi+THtk+DGtyvd+kae+iae ++++lq r se+e+easa+sdg+sr e++++if Chr1_2 5131156 TVSIGDVFIKTHTKPDGTYVDRKAEKIAELYQKNLQLRRSELEAEASAVSDGTSRtreltaEKCTTIFl*vtfyvspfsvfelsflf 5131242 *************************************************************************************** PP Transposase_24 119 ........lqvvgkdkkgrvyglGslqee 139 lq++++d++g +yg+Gsl+e+ Chr1_2 5131243 snlsfyytLQSTERDSRGVPYGVGSLKES 5131271 **************************997 PP == domain 7 score: 38.2 bits; conditional E-value: 1.3e-12 Transposase_24 1 dpevwktLvayWdtekakkrseknkkar....nglgihkHtsgsksfaqirke 49 dp+vw++Lv++W+++k++ +s+++++ r +glgihkH+sg++s+++++++ Chr1_2 6559445 DPDVWAGLVKFWKDPKSELKSINSRNTRyhdpDGLGIHKHRSGQTSYKARARK 6559497 79************************************************985 PP == domain 8 score: 54.7 bits; conditional E-value: 1e-17 Transposase_24 55 gktpdraevfieTHtkkDGtyvdekaeeiaekvkerlqereseseseasaesdgssr...edkneiflqv 121 ++ pd++ +++eTH+k+DGt++d+k+ee++++v++r+qe+es+++s++ +es++s++ ++kn+i+ qv Chr1_2 6559539 ETCPDFLVLLDETHRKSDGTFIDRKSEEVYKEVSSRIQEEESQLCSGDTTESTASGGlsiKAKNKIYAQV 6559608 678****************************************************************987 PP >> MuDR MuDR family transposase # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 41.7 0.3 6.4e-14 1.8e-13 3 67 .] 2818277 2818343 .. 2818275 2818343 .. 0.97 2 ! 48.3 1.0 5.5e-16 1.6e-15 2 67 .] 4238444 4238509 .. 4238443 4238509 .. 0.98 3 ! 38.2 0.1 8.1e-13 2.3e-12 3 67 .] 4273712 4273776 .. 4273710 4273776 .. 0.95 4 ! 32.7 0.1 4e-11 1.2e-10 3 67 .] 4499771 4499836 .. 4499769 4499836 .. 0.93 5 ! 33.7 0.0 2.1e-11 5.9e-11 2 61 .. 4535588 4535647 .. 4535587 4535654 .. 0.90 6 ! 37.5 0.3 1.4e-12 3.9e-12 2 67 .] 5286288 5286353 .. 5286287 5286353 .. 0.93 7 ! 41.0 0.4 1.1e-13 3.2e-13 7 67 .] 5303844 5303904 .. 5303842 5303904 .. 0.97 8 ! 53.9 0.3 1e-17 2.9e-17 2 67 .] 5648148 5648213 .. 5648147 5648213 .. 0.97 9 ! 51.6 1.4 5.4e-17 1.5e-16 2 67 .] 5678997 5679062 .. 5678996 5679062 .. 0.98 10 ! 40.2 1.8 1.9e-13 5.3e-13 1 67 [] 7946071 7946137 .. 7946071 7946137 .. 0.97 Alignments for each domain: == domain 1 score: 41.7 bits; conditional E-value: 6.4e-14 MuDR 3 elevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCk..kegCpWrvraskdkdsktfki 67 +e+Gq+F s+e+++e v++ a k+ f + ++ksd+ r++++C+ ++gC+W++r++++k+s+ +++ Chr1_2 2818277 GIEIGQEFCSREAVWELVNRAAKKEVFGVYTIKSDPMRLMLRCRqaSKGCTWYLRVARTKKSHFWSV 2818343 689******************************************99******************97 PP == domain 2 score: 48.3 bits; conditional E-value: 5.5e-16 MuDR 2 pelevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCkkegCpWrvraskdkdsktfki 67 ++l vG+vFk+++ ++++++ aik++f fk++ks++++++++C++e+CpW++ a+++kds++fki Chr1_2 4238444 ETLFVGSVFKNRKILQQTMSLQAIKQCFCFKQPKSCPKTLKMVCVDETCPWQLTARVVKDSESFKI 4238509 5799************************************************************98 PP == domain 3 score: 38.2 bits; conditional E-value: 8.1e-13 MuDR 3 elevGqvFkskeefkeavkkyaiknrfefkvkksd.ktryrakCkkegCpWrvraskdkdsktfki 67 ++ G+v++ske++++ ++++aikn+f+fk+++++ + +++ C++e+C+Wr+ a++++++++++i Chr1_2 4273712 GIYQGKVYASKEDCQIGLAIFAIKNQFHFKQTRTK*N-YFVLSCSDEKCDWRILATVMNGTGYYEI 4273776 7899*****************************9888.699*********************9998 PP == domain 4 score: 32.7 bits; conditional E-value: 4e-11 MuDR 3 elevGqvFkskeefkeavkkyaiknrfefkv.kksdktryrakCk.kegCpWrvraskdkdsktfki 67 l +Gq F++ efkeav++ya++++ ++ v +++ktr+++kC +C+Wrv++s+d+ +++++ Chr1_2 4499771 RLSIGQLFFNGVEFKEAVIEYALNTGNNI-V*GRWEKTRLEFKCGiVGKCKWRVYCSYDEPRHMWVV 4499836 6899**********************987.6669***********9999***************987 PP == domain 5 score: 33.7 bits; conditional E-value: 2.1e-11 MuDR 2 pelevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCkkegCpWrvraskdkd 61 + + +G++F++k e++ a+++yaik+ f+fk+++s k+r++++C+ + Wrv+ + + + Chr1_2 4535588 DAIFIGRIFRNKAEMQTALAIYAIKRFFNFKQTRSGKQRLIVRCVGPHFGWRVYDHIVGG 4535647 6789*************************************************9776655 PP == domain 6 score: 37.5 bits; conditional E-value: 1.4e-12 MuDR 2 pelevGqvFkskeefkeavkkyaiknrfefkvkksdktr.yrakCkkegCpWrvraskdkdsktfki 67 + +++G+v++ske++++ +++yaikn f+fk+++++ +++ C++e+C+Wr+ a+ +k++++f+i Chr1_2 5286288 KGIYKGKVYASKEDCQIGLAIYAIKNMFHFKQTRTKW-N*FVLSCSDEKCDWRILATLMKGTGYFEI 5286353 5799****************************99754.57789**********************98 PP == domain 7 score: 41.0 bits; conditional E-value: 1.1e-13 MuDR 7 GqvFkskeefkeavkkyaiknrfefkvkksdktryrakCkkegCpWrvraskdkdsktfki 67 ++ Fk+ke++ ++++ i+++f+f + ks+++ ++a C++++C Wrv+a++ ++ ++f+i Chr1_2 5303844 DSLFKNKEDCTTKLAIHPIRRKFHFIYAKSCPNIVFAMCVSHTCLWRVYATELEEIDRFEI 5303904 578********************************************************98 PP == domain 8 score: 53.9 bits; conditional E-value: 1e-17 MuDR 2 pelevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCkkegCpWrvraskdkdsktfki 67 + +++G+v++ske++++ +++yaikn f+fk+++++ + +++ C++e+C+Wr+ a+ +k++++++i Chr1_2 5648148 KGIYKGKVYASKEDCQIGLAIYAIKNMFHFKQTRTKWNYFVLSCSDEKCDWRILATLMKGTGYYEI 5648213 5799**********************************************************9998 PP == domain 9 score: 51.6 bits; conditional E-value: 5.4e-17 MuDR 2 pelevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCkkegCpWrvraskdkdsktfki 67 + l+vG+vFk+k+ +++++ +aik++f +k+++s+++r+++ C++ +C W++ a++ ++sk+fki Chr1_2 5678997 HPLYVGSVFKNKQVIQQTMRLVAIKKCFRYKQTRSCPKRLEMFCVDRNCSWHLTAHVIPNSKCFKI 5679062 689**************************************************************8 PP == domain 10 score: 40.2 bits; conditional E-value: 1.9e-13 MuDR 1 dpelevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCkkegCpWrvraskdkdsktfki 67 d++l+vG +Fk+ + +k+av++++++ ++++ +++ +k+ y+++C++++C+W + a+++++++ ++i Chr1_2 7946071 DHDLRVGLCFKDIDGLKKAVDWCSFRGQRSCVMREAEKDEYMFECARWKCKWTLEAARMEKHGLIEI 7946137 5799*********************************************************999887 PP >> hATC hAT family dimerisation domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 86.3 0.2 8.2e-28 2.4e-27 2 84 .] 1893583 1893666 .. 1893582 1893666 .. 0.98 2 ! 86.9 0.0 5.3e-28 1.5e-27 2 84 .] 5242333 5242417 .. 5242332 5242417 .. 0.99 3 ! 88.3 0.4 1.9e-28 5.6e-28 1 84 [] 5357713 5357799 .. 5357713 5357799 .. 0.99 4 ! 32.8 0.1 3.9e-11 1.1e-10 35 84 .] 5732417 5732466 .. 5732414 5732466 .. 0.96 5 ! 79.6 0.4 1e-25 3e-25 1 84 [] 8782747 8782831 .. 8782747 8782831 .. 0.99 Alignments for each domain: == domain 1 score: 86.3 bits; conditional E-value: 8.2e-28 hATC 2 ldeyleelpvlrrne..efdvlewwkqnssryPnlsklardvLsipvssaasErsFstlgkvllesrnsleplnveallcieqwl 84 ld ylee pvl++ + ++dv+ +wk+n sr+ ls +a+d+Lsip++++asE++Fs++ +vl+++r++l p nv+allc+++w+ Chr1_2 1893583 LDMYLEE-PVLDMVSfrDMDVIAYWKNNVSRFKELSSMACDILSIPITTVASESAFSIGSRVLNKYRSCLLPTNVQALLCTRNWF 1893666 899****.*****99*********************************************************************5 PP == domain 2 score: 86.9 bits; conditional E-value: 5.3e-28 hATC 2 ldeyleelpvlrrne..efdvlewwkqnssryPnlsklardvLsipvssaasErsFstlgkvllesrnsleplnveallcieqwl 84 l+ yl+++p l++++ ++++l++wk+n++ry l +a+d+Lsip++++asE++Fs +g+vl+++rn+l p+nv+al+c+++wl Chr1_2 5242333 LEIYLDDEPRLEMKTfsDMEILSFWKENQHRYGDLASMASDLLSIPITTVASESAFSVGGRVLNPFRNRLLPQNVQALICTRNWL 5242417 899*********************************************************************************7 PP == domain 3 score: 88.3 bits; conditional E-value: 1.9e-28 hATC 1 eldeyleelpvlrrne....efdvlewwkqnssryPnlsklardvLsipvssaasErsFstlgkvllesrnsleplnveallcieqwl 84 eld yl++ +v+++++ e+dvl+ww+ ns++yP+ls +ardvL+++vss+asE++Fst+g++l +sr++l++++ve l+c+eqwl Chr1_2 5357713 ELDIYLKA-EVENPKTlpgmEWDVLSWWRLNSQKYPVLSEIARDVLAMQVSSVASESAFSTSGRLLEPSRSCLTHYMVETLVCLEQWL 5357799 89******.*****99***********************************************************************7 PP == domain 4 score: 32.8 bits; conditional E-value: 3.9e-11 hATC 35 sklardvLsipvssaasErsFstlgkvllesrnsleplnveallcieqwl 84 +a d+L ip+++++ E++Fs++ +vl ++rn+l p+nv allc ++wl Chr1_2 5732417 ASMALDILNIPITTVSLESTFSIGSRVLIPYRNCLLPQNVRALLCRRNWL 5732466 68***********************************************7 PP == domain 5 score: 79.6 bits; conditional E-value: 1e-25 hATC 1 eldeyleelpvlrrneefdvlewwkqnssryPnlsklardvLsipvssaas.ErsFstl.gkvllesrnsleplnveallcieqwl 84 +l++ylee p+++rn++fd+l+wwk++ +yP+ls +ar+vL++p+ ++s E +F+t+ + ++e ++sl+p++v+al+c+++w+ Chr1_2 8782747 DLEKYLEE-PLFPRNSDFDILNWWKVHTPKYPILSMMARNVLAVPMLNVSSeEDAFETCqRRRVSETWRSLRPSTVQALMCAQDWI 8782831 69******.****************************************************************************7 PP >> Transposase_23 TNP1/EN/SPM transposase # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 85.3 0.1 1.6e-27 4.5e-27 2 73 .] 3534746 3534817 .. 3534745 3534817 .. 0.97 2 ! 24.3 0.0 1.7e-08 5e-08 35 73 .] 5226306 5226344 .. 5226305 5226344 .. 0.96 3 ! 79.4 0.0 1.1e-25 3.1e-25 4 72 .. 5226404 5226472 .. 5226403 5226473 .. 0.97 4 ! 79.5 0.1 9.8e-26 2.8e-25 2 72 .. 5228785 5228856 .. 5228784 5228857 .. 0.97 5 ! 29.0 0.1 5.8e-10 1.7e-09 2 46 .. 5229101 5229145 .. 5229100 5229146 .. 0.97 6 ! 42.6 0.0 3.3e-14 9.5e-14 15 71 .. 5248550 5248606 .. 5248541 5248608 .. 0.94 Alignments for each domain: == domain 1 score: 85.3 bits; conditional E-value: 1.6e-27 Transposase_23 2 ksqkkckllDwkssddvVaegrvcssdpdelvnriPLGpnaakVlVdvvlvkdAalWRptseietledalgs 73 +++kkc++lD+k+ ++ Vaegrvc+s+p+++v+++PLGpna+kV+V+v +++dAa+WRp+sei+t++d +gs Chr1_2 3534746 SAKKKCIMLDYKNGRERVAEGRVCTSNPSDTVHHMPLGPNASKVCVEVSKIGDAAMWRPNSEIQTIADDVGS 3534817 6899****************************************************************9985 PP == domain 2 score: 24.3 bits; conditional E-value: 1.7e-08 Transposase_23 35 riPLGpnaakVlVdvvlvkdAalWRptseietledalgs 73 +++L p+++kVlV++++++dA+lWRp+++i+ +++a+g+ Chr1_2 5226306 DCRLCPTDLKVLVETAYQPDAFLWRPAHKIFNMKKAVGH 5226344 79***********************************96 PP == domain 3 score: 79.4 bits; conditional E-value: 1.1e-25 Transposase_23 4 qkkckllDwkssddvVaegrvcssdpdelvnriPLGpnaakVlVdvvlvkdAalWRptseietledalg 72 ++kckllD+k+++ +Vaegr+ +++p++lvn +PLGp+a+kV+Vd+v+++d++lWRpt+e+ +led+l+ Chr1_2 5226404 GNKCKLLDLKNAEVIVAEGRWETQEPSALVNGLPLGPKAVKVFVDSVKQPDTSLWRPTAEMSYLEDCLM 5226472 57*****************************************************************97 PP == domain 4 score: 79.5 bits; conditional E-value: 9.8e-26 Transposase_23 2 ksqkkckllDwkssdd.vVaegrvcssdpdelvnriPLGpnaakVlVdvvlvkdAalWRptseietledalg 72 +sq+kc+l+Dw++++d +V egr+++sdpd+lvn+++LGp+++kVlVd+++v+d++lWRp +i+t+e ++g Chr1_2 5228785 RSQPKCILIDWTGNGDaTVVEGRIITSDPDDLVNDCRLGPSDVKVLVDTAMVPDTYLWRPVLNICTIESVIG 5228856 789*****************************************************************9887 PP == domain 5 score: 29.0 bits; conditional E-value: 5.8e-10 Transposase_23 2 ksqkkckllDwkssddvVaegrvcssdpdelvnriPLGpnaakVl 46 k++kkckl+D++++++vVaegrv+s d + +v+ ++LG aa+V+ Chr1_2 5229101 KENKKCKLMDISGRKQVVAEGRVHSLDLEVKVQCVRLGSHAARVW 5229145 789*****************************************9 PP == domain 6 score: 42.6 bits; conditional E-value: 3.3e-14 Transposase_23 15 sddvVaegrvcssdpdelvnriPLGpnaakVlVdvvlvkdAalWRptseietledal 71 +d vVaegr++++d d+lvn iP pn +k++Vdvv ++d+++WR t ++++led+l Chr1_2 5248550 DDVVVAEGRWQTQDCDALVNGIPPRPNSVKIFVDVVHQPDTFIWRSTVDVTYLEDCL 5248606 556****************************************************98 PP >> Peptidase_C48 Ulp1 protease family, C-terminal catalytic domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 34.6 0.0 1.5e-11 4.3e-11 22 200 .. 2452475 2452643 .. 2452455 2452654 .. 0.83 2 ! 73.2 1.3 2.2e-23 6.4e-23 26 211 .. 4683035 4683221 .. 4683033 4683224 .. 0.87 3 ! 92.3 0.0 3.3e-29 9.4e-29 30 214 .. 4971199 4971381 .. 4971181 4971383 .. 0.93 4 ! 25.1 0.0 1.2e-08 3.6e-08 157 200 .. 7403869 7403908 .. 7403864 7403912 .. 0.91 Alignments for each domain: == domain 1 score: 34.6 bits; conditional E-value: 1.5e-11 HHHTSTTEEE--THHHHHHH....................H------TTCCHHCS..-GGG-SEEE--EET.TTEEEB--EETTTTEE CS Peptidase_C48 22 seekaervhflntffvskLtkkvkdfkknkskkkfkeskkkdlyngvrrwtrkknkedlfdkdiiyiPinedgkHWvlliinlpkkti 109 ek + v f+++ fv L+k++++f k+ +k ++ g+ + + + ++yiP+ +d HWv+l+++ + i Chr1_2 2452475 IIEKHQAVSFIDSTFVVELSKHYPKFVKSADK----------GMYGFDHDLLEC---TPTGSAVVYIPFLIDLQHWVGLCVDMSARII 2452549 6789999********************99955..........444554444444...778899************************* PP -EE-TT-----....HHHHHHHHHHHHHHHHHTTS------.......EEEEE-------------HHHHHHH-------S---H... CS Peptidase_C48 110 lilDSlislhk...vkkenrpidnlkpyLleealnkkskql.dltpfeierltkvpqqknsgDCGiyvlkfiellaegppqessvtlt 193 +lD+ +l + kk p+++++pyL++ a++ ++ l++ + r +pq ++ +G+ + ie +a g q + + Chr1_2 2452550 SVLDCYTGLWRetkLKKVLLPLAEMLPYLFRFAIKMAGEKKlRLKSLAVHRENDIPQADSVKYSGVMAARLIEAHANGGIQACKE-VK 2452636 **********999999****************888776655599********************************999998643.66 PP .HHHHHH CS Peptidase_C48 194 ekdvdsf 200 ++dv Chr1_2 2452637 HADVVTA 2452643 6666555 PP == domain 2 score: 73.2 bits; conditional E-value: 2.2e-23 STTEEE--THHHHHHH.....................H------TTCCHHCS..-GGG-SEEE--EET.TTEEEB--EETTTTEE-EE CS Peptidase_C48 26 aervhflntffvskLtkkvkdfkknkskkkfkeskk.kdlyngvrrwtrkknkedlfdkdiiyiPinedgkHWvlliinlpkktilil 112 ++r++fl++ ++ k+++++++ ++ k +++++ + ng++ ++++n+++++++d++y + +++HWv+l nl+ ++i+++ Chr1_2 4683035 NHRIAFLDQVLIRKMKNDYNKHYSSDFK-TYNWTGYyVNHLNGTSHTDAATNNKWFTNVDHLYGCLFVNENHWVALDFNLKTNRIYVY 4683121 89**************888777666655.566666669999999999999999*********************************** PP -TT-----....HHHHHHHHHHHHHHHHHTTS------........EEEEE-------------HHHHHHH-------S---H....H CS Peptidase_C48 113 DSlislhk...vkkenrpidnlkpyLleealnkkskql..dltpfeierltkvpqqknsgDCGiyvlkfiellaegppqessvtltek 195 DS+ ++ + + ++++++ +++p +l+e++ k+ + + +++++++ k p +++ gDC iy++k+ie+la g++++ l++ Chr1_2 4683122 DSIPTPVEeleMVQQCMFLRKIIPTMLSEYILEKDHKKsyAMLEVKRVTK-KNPVNDDRGDCAIYAIKYIECLALGKSFDG---LCDR 4683205 ***********999999************766555555255666666665.89***************************9...9*** PP HHHHHHHHHH...HHH CS Peptidase_C48 196 dvdsfrkklaldiyei 211 ++++++ +l ++++ + Chr1_2 4683206 NMQALWINLGVEMFDE 4683221 ******9999887765 PP == domain 3 score: 92.3 bits; conditional E-value: 3.3e-29 EE--THHHHHHH.....................H------TTCCHHCS..-GGG-SEEE--EET.TTEEEB--EETTTTEE-EE-TT- CS Peptidase_C48 30 hflntffvskLtkkvkdfkknkskkkfkeskk.kdlyngvrrwtrkknkedlfdkdiiyiPinedgkHWvlliinlpkktililDSli 116 +++ +++ ++L+ k+++f+++k+k +++++ + k+ + g + +l ++d i++P+ +++ HWv+l+inl ++ ++ilD++ Chr1_2 4971199 VIIKPWLDNYLQGKYRSFQSAKNKLRVQWNNQfKRTIPGS----PLV---WLEEIDLILMPMIWKNQHWVGLAINLGNWCVDILDPNY 4971279 67899999****************9999999855544444....777...************************************** PP ----....HHHHHHHHHHHHHHHHHTTS------.......EEEEE-------------HHHHHHH-------S---H....HHHHHH CS Peptidase_C48 117 slhk...vkkenrpidnlkpyLleealnkkskql.dltpfeierltkvpqqknsgDCGiyvlkfiellaegppqessvtltekdvdsf 200 +l+ v++ ++pi ++y++ ++++++ +q+ l pf+++r+++++ +++sgDCG +++k i+++a + + e+++ +t++ v +f Chr1_2 4971280 HLNDdrqVEEFIAPIVVQISYIINKFCQPRMSQVhGLAPFSWTRIKGIYVNERSGDCGRVSMKLIKIYATDGNVEKMALITDEIVNEF 4971367 ******************************99999*****************************************999********* PP HHHHH...HHHHTT CS Peptidase_C48 201 rkklaldiyeilrs 214 r ++a d +++l + Chr1_2 4971368 RGQYAIDLFQELVA 4971381 *****999888765 PP == domain 4 score: 25.1 bits; conditional E-value: 1.2e-08 EE-------------HHHHHHH-------S---H....HHHHHH CS Peptidase_C48 157 ltkvpqqknsgDCGiyvlkfiellaegppqessvtltekdvdsf 200 + +vpqqkn++DCG++vl+fi++++e++pq+ l++kd+ ++ Chr1_2 7403869 CNQVPQQKNDFDCGPFVLFFIKRFIEEAPQR----LKRKDLGMV 7403908 889****************************....778988776 PP >> Plant_tran Plant transposon protein # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 154.0 0.1 3.5e-48 1e-47 111 210 .. 5471374 5471473 .. 5471372 5471474 .. 0.98 Alignments for each domain: == domain 1 score: 154.0 bits; conditional E-value: 3.5e-48 Plant_tran 111 vkyvvnekqynlayyladGiypkwatlvksirlpqlekkklfaqkqeaarkdverafGvlqarfkivakparlwekedlakimkaciilhn 201 + +vvn+++ynlayyl+d iypkwat+++si lpq ek+ lfa++qea+rkdverafGvlqarf+iv++pa +w+k ++ +im+aciilhn Chr1_2 5471374 MAFVVNGNEYNLAYYLTDEIYPKWATFIQSISLPQDEKASLFATNQEACRKDVERAFGVLQARFAIVKHPALIWDKIKIGNIMRACIILHN 5471464 689**************************************************************************************** PP Plant_tran 202 mivederdl 210 mivederd Chr1_2 5471465 MIVEDERDG 5471473 *******96 PP >> Transposase_mut Transposase, Mutator family # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 23.8 0.0 1.5e-08 4.3e-08 200 346 .. 5648381 5648520 .. 5648365 5648529 .. 0.78 Alignments for each domain: == domain 1 score: 23.8 bits; conditional E-value: 1.5e-08 Transposase_mut 200 LgievadsEsekfWrtvledLkaRGlqg..velvvsDghkGLkaaieavfpeasvQrCivHllrnllaavpkkeakevaaalkaiy 283 Lg+ v dsE+ ++W+ ++++L+ + + + + sD h + a+++vfp+a++ Ci+Hl rn+ ++ ++k + ++ + Chr1_2 5648381 LGFAVVDSENDESWTWFFTKLERI-IADskTLTILSDRHSSILVAVKRVFPQANHGACIIHLCRNIQTKYKNKALTQLVKNAGYAF 5648465 9********************755.5543455677**************************************9999999999999 PP Transposase_mut 284 kaadaeeaaaaleafleklakkypkvaelleeareellafldfpeeiwrklrstNaiErlnke 346 + ++ +e + ++e+ ++ ++ky + + +r ++ + ++ +l++ N E lnk Chr1_2 5648466 TGTKFKEFYGQIETTNQN-CGKYLHDIGMANWTR-------HYFRGQRFNLMTSNIAETLNKA 5648520 999999999999988774.445533222222222.......1224556666666666666665 PP >> RnaseH RNase H [No individual domains that satisfy reporting thresholds (although complete target did)] >> RVP_2 Retroviral aspartyl protease # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 30.7 0.0 2.6e-10 7.4e-10 23 134 .. 5267428 5267540 .. 5267418 5267541 .. 0.92 Alignments for each domain: == domain 1 score: 30.7 bits; conditional E-value: 2.6e-10 RVP_2 23 lGtflvnsiPatvLfDsGashsfiskafvkkhglkveelktpllvssPggdikatk.rspsvsieiqgvdfladlilleskdlDviLGldWlakh 116 Gt+lv + a v+fDs as fi+ + + +++ + ++ ++ gg+ a+ r+ v i+i g +++a++i+ + DviLG+dW+ ++ Chr1_2 5267428 TGTLLVGGVEAHVFFDSRASQCFITLESASGGNIRGHPGEQFGAIKVVGGQCLAVLgRAKVVDIQIAGESMPANMIISPVELYDVILGMDWFDHY 5267522 69********************************************99999887652788899******************************** PP RVP_2 117 kgvidCaertvtLtsekg 134 + +dC + v ++ ++g Chr1_2 5267523 RVHLDCHCGRVSFELPNG 5267540 *******99998877766 PP Internal pipeline statistics summary: ------------------------------------- Query sequence(s): 1 (10142557 residues) Target model(s): 46 (7833 nodes) Passed MSV filter: 46 (1); expected 46.0 (1) Passed bias filter: 46 (1); expected 46.0 (1) Passed Vit filter: 46 (1); expected 46.0 (1) Passed Fwd filter: 46 (1); expected 46.0 (1) Initial search space (Z): 46 [actual number of targets] Domain search space (domZ): 16 [number of targets reported over threshold] # CPU time: 2084.64u 3.84s 00:34:48.48 Elapsed: 00:35:03.85 # Mc/sec: 37.76 // Query: Chr1_3 [L=10142557] Description: CHROMOSOME dumped from ADB: Jun/20/09 14:53; last updated: 2009-02-02 Scores for complete sequence (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Model Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 0 3460.8 55.9 1.7e-103 336.6 0.5 20.4 17 RVT_2 Reverse transcriptase (RNA-dependent DNA pol 0 3429.5 38.9 4e-206 676.7 0.0 14.5 13 ATHILA ATHILA ORF-1 family 0 1272.0 72.7 3.4e-47 152.3 0.1 26.4 17 RVT_1 Reverse transcriptase (RNA-dependent DNA pol 0 1109.6 43.4 4.2e-29 92.9 0.0 22.1 17 rve Integrase core domain 5.3e-305 976.8 102.7 7.2e-25 78.8 0.4 31.8 21 Retrotrans_gag Retrotransposon gag protein 7.5e-238 775.8 20.3 3.3e-97 315.8 0.1 5.4 4 Transposase_21 Transposase family tnp2 2.3e-179 580.0 33.1 1.9e-42 136.3 1.1 15.1 9 Transposase_24 Plant transposase (Ptta/En/Spm family) 2.6e-160 513.0 23.9 1.6e-23 74.5 0.0 13.5 12 MULE MULE transposase domain 3.3e-128 409.3 95.3 5.3e-20 62.6 0.5 11.4 10 MuDR MuDR family transposase 1.1e-67 219.2 0.1 2.3e-67 218.2 0.0 1.6 1 Plant_tran Plant transposon protein 4.7e-53 170.6 0.5 8.7e-53 169.7 0.4 1.5 1 DUF659 Protein of unknown function (DUF 659) 4.2e-44 142.5 14.6 8.7e-31 99.0 0.7 4.3 2 Peptidase_C48 Ulp1 protease family, C-terminal catalytic d 7.7e-43 135.8 3.6 1e-26 84.1 0.1 3.5 2 Transposase_23 TNP1/EN/SPM transposase 1.5e-26 83.8 0.3 4.6e-26 82.2 0.1 2.1 1 hATC hAT family dimerisation domain 3.1e-19 60.5 9.2 3.4e-06 17.5 0.0 6.1 0 Transposase_mut Transposase, Mutator family 5.1e-07 21.5 0.0 1.8e-05 16.5 0.0 2.6 0 RVP_2 Retroviral aspartyl protease Domain annotation for each model (and alignments): >> RVT_2 Reverse transcriptase (RNA-dependent DNA polymerase) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 237.1 0.2 1.5e-73 4.2e-73 1 241 [. 3310075 3310313 .. 3310075 3310317 .. 0.97 2 ! 289.3 0.0 1.7e-89 4.8e-89 2 244 .. 4136000 4136242 .. 4135999 4136244 .. 0.99 3 ! 229.9 0.0 2.3e-71 6.5e-71 2 179 .. 4137981 4138158 .. 4137980 4138162 .. 0.98 4 ! 124.9 0.2 2.7e-39 7.7e-39 97 245 .. 4271651 4271805 .. 4271650 4271806 .. 0.92 5 ! 42.3 0.1 4.4e-14 1.3e-13 183 245 .. 4281533 4281595 .. 4281519 4281596 .. 0.90 6 ! 78.0 0.1 5.4e-25 1.6e-24 54 125 .. 4366981 4367052 .. 4366971 4367078 .. 0.93 7 ! 236.8 0.2 1.8e-73 5.1e-73 42 244 .. 4442715 4442917 .. 4442713 4442919 .. 0.99 8 ! 29.7 0.0 3e-10 8.7e-10 185 245 .. 4521227 4521287 .. 4521225 4521288 .. 0.95 9 ! 167.2 1.1 3.1e-52 9e-52 27 242 .. 5219631 5219846 .. 5219630 5219849 .. 0.92 10 ! 64.5 0.1 7.1e-21 2e-20 138 235 .. 5393457 5393554 .. 5393456 5393556 .. 0.97 11 ! 132.6 0.1 1.2e-41 3.4e-41 6 244 .. 5510654 5510894 .. 5510653 5510896 .. 0.87 12 ! 274.3 0.1 6.3e-85 1.8e-84 2 245 .. 5559678 5559921 .. 5559677 5559922 .. 0.98 13 ! 311.9 0.0 2e-96 5.8e-96 2 245 .. 5686109 5686356 .. 5686108 5686357 .. 0.98 14 ! 302.2 0.1 1.9e-93 5.3e-93 1 244 [. 5787952 5788198 .. 5787952 5788200 .. 0.97 15 ! 303.3 0.0 8.7e-94 2.5e-93 2 245 .. 5815056 5815303 .. 5815055 5815304 .. 0.99 16 ! 336.6 0.5 6e-104 1.7e-103 1 244 [. 6005407 6005650 .. 6005407 6005652 .. 0.99 17 ! 316.6 0.0 7.4e-98 2.1e-97 2 245 .. 8789997 8790244 .. 8789996 8790245 .. 0.99 Alignments for each domain: == domain 1 score: 237.1 bits; conditional E-value: 1.5e-73 RVT_2 1 nktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngelee 95 n+t +lv+lp g k+iglkWvfklK+n+d +i++ykARlVakG+ q++g+d+ e+f pv+ +e i +l++l a++++e+ qlDvktaFL+gel+e Chr1_3 3310075 NETRSLVDLPFGIKPIGLKWVFKLKRNSDVSINKYKARLVAKGYVQRYGTDFYEVFVPVACIEKI-ILVDLEASNDWEI-QLDVKTAFLHGELKE 3310167 68899***********************************************************9.789*********9.8************** PP RVT_2 96 evYvkqpeGfedkkkenkvckLkkslYgLkqapraW.yeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeL 189 +vYv+ pe f++k++e kv+kL+k+lY L++apr ++kl+++l++l+f+k++++++++ k+ + e+++v++YVDDl+++g+++++i+e+k e+ Chr1_3 3310168 TVYVTRPEDFVEKGEEGKVYKLHKALYCLRKAPR-P*NNKLNQILQELQFEKCSKEPSVYRKTISGEFLLVAVYVDDLFVTGTNTTIIDEFKGEM 3310261 *********************************9.55579******************************************************* PP RVT_2 190 kkefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvst 241 +++f+m++lg+l+y+Lg+e+ +++e+i l+q++y k+l+++ m +++ +t Chr1_3 3310262 TSNFNMSNLGKLTYYLGIEVFQRKEEIRLNQSRYEMKILEETAMVSCSLIHT 3310313 **********************************************998776 PP == domain 2 score: 289.3 bits; conditional E-value: 1.7e-89 RVT_2 2 ktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleee 96 +tw+l++ +++++v+g+kWvf++Kln+dg++++ kAR+VakG+ q+egidy et+s vv+++++r +l++a+ +++e++q+Dvk+aFL+g+l+e+ Chr1_3 4136000 QTWSLIPYTPDMHVLGCKWVFRTKLNADGSLDKLKARIVAKGYDQEEGIDYLETYSSVVRTATVRSVLHVATIMNWEVKQMDVKNAFLHGDLTET 4136094 8********************************************************************************************** PP RVT_2 97 vYvkqpeGfedkkkenkvckLkkslYgL.kqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLk 190 vY+kqp+Gf+d++++++vc+L+k lYgL + +praW++k+s++ll++gf s++d++lfv+ k++++i++llYVDD+ i+g+s++++++l +eL+ Chr1_3 4136095 VYMKQPTGFVDSARPDYVCHLHKFLYGL*Q-SPRAWFDKFSNFLLEFGFFCSQSDPSLFVYIKNKDIILLLLYVDDMAITGNSSTALSNLLDELN 4136188 ***************************777.9*************************************************************** PP RVT_2 191 kefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstple 244 k+f+mkd+g+l+yfLg++ + +++g++lsq+kyv++ll +++m d+ p+ tpl Chr1_3 4136189 KQFRMKDMGKLHYFLGIQAHYHSGGLFLSQQKYVEDLLITASMADCAPMPTPLP 4136242 ***************************************************985 PP == domain 3 score: 229.9 bits; conditional E-value: 2.3e-71 RVT_2 2 ktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleee 96 ktw+lv++p g+++i++ W++k+K+n+dg+++ryk+RlVa+G +q++g+d+ etfspvvk ++ir++l++a+e++ +++qlDv++aFL+g+lee+ Chr1_3 4137981 KTWSLVPKPAGTNIINSIWLYKHKYNADGSLSRYKSRLVANGKSQEHGVDFYETFSPVVKPATIRAVLNFAVERDSSVHQLDVQNAFLHGKLEET 4138075 8********************************************************************************************** PP RVT_2 97 vYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagssk 179 vY+ +p+Gf+d+k++ +vckL+k+lYg+kqapraW++++ ++++ +gfk+s++d +lfv+k+++++ ++llYVDD+++++ss Chr1_3 4138076 VYMYEPPGFVDNKNPGYVCKLNKALYGFKQAPRAWNARFASYVKMMGFKQSKCDASLFVYKQGNDMAYLLLYVDDIMLTASSP 4138158 *******************************************************************************9875 PP == domain 4 score: 124.9 bits; conditional E-value: 2.7e-39 RVT_2 97 vYvkqpeGfedkkk.......enkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfv.kkkeeeliivllYVDDlliagsskelie 183 +Y+k eG++ +++ + +v+kL++slYgLkq+ +Wy++ls++llk+g+ +++ +c+f+ k+ ++++++++YVDDl i+g+ ke i+ Chr1_3 4271651 IYMKISEGLKLPEAldsskskDIYVVKLQRSLYGLKQSRCMWYNRLSDYLLKKGYVNNKICPCVFI*KSP-SGFVLIVVYVDDLNIIGTPKE-ID 4271743 788888888776656665555779*****************************************99976.6799*************9987.9* PP RVT_2 184 elkeeLkkefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 ++ +++k+efemkdlg++k++Lgl+ie+ ++gi+++q++y+kk+lk+f+m++a+p stp+ + Chr1_3 4271744 DARTHMKEEFEMKDLGKTKFCLGLQIEHFQDGIFVHQSNYTKKILKRFNMDKANPLSTPMVN 4271805 ***********************************************************975 PP == domain 5 score: 42.3 bits; conditional E-value: 4.4e-14 RVT_2 183 eelkeeLkkefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 +++k+++k+efem+dlg l+ fLg+e++++++gi+lsqeky++kl++kf+m+++k+vstpl++ Chr1_3 4281533 STFKKNMKDEFEMTDLGLLNCFLGMEVNQDDSGIFLSQEKYANKLIDKFGMKESKSVSTPLTP 4281595 579*********************************************************976 PP == domain 6 score: 78.0 bits; conditional E-value: 5.4e-25 RVT_2 54 etfspvvklesirlllalaaekkleleqlDvktaFLngeleeevYvkqpeGfedkkkenkvckLkkslYgLk 125 e++spvvk+ sirl+l+++++ ++e++ +Dvkt+FL+g l+e++Y++qp+G+++++ ++ vc LkkslY Lk Chr1_3 4366981 EIYSPVVKHVSIRLMLSMVVHLDMEVQPMDVKTTFLHGYLDETIYMEQPQGYVHERYPERVCLLKKSLYSLK 4367052 9**********************************************************************7 PP == domain 7 score: 236.8 bits; conditional E-value: 1.8e-73 RVT_2 42 kGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleeevYvkqpeGfedkkkenkvckLkkslYgLkqapraWyekls 136 +Gf+q++ dy etfspv+k ++irl+l++a++k ++l+qlDv++aFL+g+l+eevY++qp+Gf d +++++vc+Lkk +YgLkqa raWy++l+ Chr1_3 4442715 QGFHQQYWKDYAETFSPVIKSTTIRLVLDVATAKAWQLKQLDVNNAFLQGKLTEEVYMSQPPGFIDIDRPSYVCRLKKPIYGLKQAQRAWYTTLK 4442809 9********************************************************************************************** PP RVT_2 137 evllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLkkefemkdlgelkyfLgleierkeegillsqekyvkkllkkf 231 ++ll gf +s a+++lf++++++++++vllYVDD++++ +++ +++++ +++ ++f++kdl +l+ fLg+e+++ ++g++l+q+ky+++ll k+ Chr1_3 4442810 QYLLCSGFVNSVANTSLFIHTSGHNITYVLLYVDDIIVTRNNNVVVNKFFSSFVERFSIKDLSDLHSFLGIEVNQIAKGLHLMQQKYITNLLIKH 4442904 *********************************************************************************************** PP RVT_2 232 kmedakpvstple 244 +m dakpv+tpl Chr1_3 4442905 NMLDAKPVTTPLP 4442917 ***********86 PP == domain 8 score: 29.7 bits; conditional E-value: 3e-10 RVT_2 185 lkeeLkkefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 +++ ++++f+++dlg+lkyfLglei+r+++gi+++q+ky+ +ll+++++ +kp+ +p+e+ Chr1_3 4521227 VEKCFERSFKLRDLGTLKYFLGLEIARNADGISICQRKYTLELLAETGLLGCKPSFVPMEP 4521287 6678899****************************************************97 PP == domain 9 score: 167.2 bits; conditional E-value: 3.1e-52 RVT_2 27 nedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekklele.....qlDvktaFLngeleeevYvkqpeGfedkkkenkvck 116 +++g+i+rykARlV +Gf+qk+g+d+ f + + + i + + a+k+ +l+ k+ FL+ +leee+Y+kq eGf+ ++e+k++k Chr1_3 5219631 ETNGDIDRYKARLVIQGFRQKKGLDF---FEYIFSSNEINFNQD--AHKHCNLTrs*ntSNGCKNSFLKWSLEEEIYMKQHEGFVILRQEHKMYK 5219720 56899*********************...556777777776555..5555555411222679********************************* PP RVT_2 117 LkkslYgLkqapra.WyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLkkefemkdlgelkyfLgleie 210 L kslYgLkqap + W+ek+++v++++gf+ +e+dkc+++k + ++ i+++lYVDD+li+g+++ +i+++k++Lk++femkd+g ++ +Lg++i Chr1_3 5219721 LVKSLYGLKQAP-K*WHEKFDSVMMSNGFTINECDKCIYFKITPTGYILLCLYVDDMLILGNNTYIINQTKNMLKRSFEMKDMGLADVILGIKII 5219814 ***********9.********************************************************************************** PP RVT_2 211 rkeegillsqekyvkkllkkfkmedakpvstp 242 r++eg++lsq++y +k+l++fk + ++++tp Chr1_3 5219815 RTNEGLTLSQTHYSEKILDRFKHYSNETAKTP 5219846 ***********************999999998 PP == domain 10 score: 64.5 bits; conditional E-value: 7.1e-21 RVT_2 138 vllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLkkefemkdlgelkyfLgleierkeegillsqekyvkkllkkfk 232 ++ +++++k++++++++ k+ +++++iv++YVDDl+++g++ ++iee+k e++++f+m+dl++l+y+ +++ ++e+gi+l+q++y+ ++l++++ Chr1_3 5393457 FFSSCNYEKCSKEPSVYRKEVSKNFLIVSVYVDDLFVTGTNVAIIEEFKGEMSSKFDMSDLERLTYYRRIKFCQHEGGIILNQTRYALNILEEAG 5393551 67889*****************************************************************************************9 PP RVT_2 233 med 235 m + Chr1_3 5393552 MLS 5393554 975 PP == domain 11 score: 132.6 bits; conditional E-value: 1.2e-41 RVT_2 6 lvelpkgkkviglkWvfklKlnedgeier.ykARlVakGftqkegidyeetfspvvklesirlllal.....aaekkleleqlDvktaFLngele 94 lv++p++ +++ + W+f++K+++dg + +kARlVa+ ++++g+d++etfspvvk e l+l+l +++ + l k +++ Chr1_3 5510654 LVPRPPKVNIVRSMWLFRHKYDADG-VLS*HKARLVANCKSKEHGVDFTETFSPVVKPEQYGLFLTLe*r*tGPYNNWMSRMLYYKV----ISMK 5510743 7999********************8.56788***********************************955443467777766665554....5666 PP RVT_2 95 eevYvkqpeGf.edkkkenkvckLkkslYgLkqapraWyeklsevllk.lgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelke 187 + + ++ ++ + ++n+vckL+k++YgLkqapraW++ ++++l lgf s+ad++lf+ k++ ++ +vllYVDD+++ +ss +li+++ + Chr1_3 5510744 QFICISLQSSStRNFPTTNHVCKLEKAIYGLKQAPRAWNSWFTKFL-M*LGFIMSKADNSLFIFKQGIQMAYVLLYVDDIMLKASSPSLIQKIIT 5510837 7776665444404445689************************998.5559******************************************** PP RVT_2 188 eLkkefemkdlgelkyfLgleierkeegillsqekyvkkllk.kfkmedakpvstple 244 +Lk ef m+d+g l++fL ++ + ++++++l+q+ y++++++ +m+++kp++tp++ Chr1_3 5510838 QLKGEFPMTDMGWLHHFLDIKANFNKQRMFLNQHVYAQDIIN*A-RMSECKPCATPVD 5510894 ****************************************9543.5889999999876 PP == domain 12 score: 274.3 bits; conditional E-value: 6.3e-85 RVT_2 2 ktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleq.lDvktaFLngelee 95 ++w+l+++p +++v+g+kW+fk+K nedg ++r+kARlVa+G++q eg+d+eetf+pv++l+sir+l+ +a++ +++l + +Dvk aFL+g l+e Chr1_3 5559678 EVWDLTPQPADSNVVGTKWIFKNKINEDGLVVRNKARLVAQGYSQVEGVDFEETFAPVARLKSIRFLFGMACALNFKL-H*MDVKHAFLDGVLQE 5559771 79*************************************************************************998.999************* PP RVT_2 96 evYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelk.eeL 189 evYv+qp+Gfe++k++n+v+kLkk+lYgLkqapraWye+l+++l ++g+ + + dk+lfv k++++l+iv++YVDD+++ ++ +e +e+++ + + Chr1_3 5559772 EVYVEQPKGFENSKHPNHVYKLKKALYGLKQAPRAWYERLTTFLVNQGYVRGSVDKTLFVLKDDNGLLIVQIYVDDIVFGSTCQEYVERFV*S-M 5559865 *************************************************************************************99998666.7 PP RVT_2 190 kkefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 +kefem+ +gel+yfLgl+i+++e+g+++sq++y+k+l+++++++ +k+++tp++ Chr1_3 5559866 TKEFEMSLCGELTYFLGLQIKQTEHGFFISQRTYAKNLVERYGLKGSKTARTPMDV 5559921 99****************************************************85 PP == domain 13 score: 311.9 bits; conditional E-value: 2e-96 RVT_2 2 ktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleee 96 +tw++v+lp++kk+ig+kWvf++K+n+dg+ierykARlVakG+tq+e +dyeetfspv+kl+s+r++l laa++k+++ qlD+++aFLng+l+ee Chr1_3 5686109 NTWSVVSLPPNKKAIGCKWVFTIKHNADGSIERYKARLVAKGYTQEESLDYEETFSPVAKLTSVRMMLLLAAKMKWSVLQLDISNAFLNGDLDEE 5686203 8********************************************************************************************** PP RVT_2 97 vYvkqpeGfedkkk....enkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelke 187 +Y+k p+G+ d ++ vc+L+ks+YgLkqa+r+Wy kls++l+ +gf+ks+ad++lf+k + l+ vl+YVDD++i+++s+++++++++ Chr1_3 5686204 IYMKIPPGYADLIGeslpPHAVCRLHKSIYGLKQASRQWYLKLSNTLKGMGFQKSNADHTLFIKFASGVLMGVLVYVDDIMIVSNSDNAVTQFTT 5686298 *********99766667799*************************************************************************** PP RVT_2 188 eLkkefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 eLk+ f+++dl ++kyf g+ei+r+++gi+++q+ky+ +ll+++++ +kp+s+pl++ Chr1_3 5686299 ELKSYFKLRDLSAAKYFFGIEIARSAKGISICQRKYILELLSTTGFLGSKPSSIPLDT 5686356 *******************************************************986 PP == domain 14 score: 302.2 bits; conditional E-value: 1.9e-93 RVT_2 1 nktwelvelpkgkkviglkWvfklKlnedg.eierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngele 94 n+t +lve+p+g k+ig++W+f++K+ +g e rykARlVakGftqkegidy+e+fspvvk+ sir++++++a+ ++el+q+DvktaFL+g l+ Chr1_3 5787952 NQTLDLVEKPEGVKIIGCRWIFTRKTGIQGvEAPRYKARLVAKGFTQKEGIDYTEIFSPVVKHVSIRYIVSMVAHFDMELQQMDVKTAFLHGFLD 5788046 7899**************************999************************************************************** PP RVT_2 95 eevYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeL 189 e++Y++qpeGfedkk+++kvc Lk slYgLkq+pr+W+ +++e+++ +gf +s+ d+c+++kk +++ +++llYVDD+lia+ +k++++elk L Chr1_3 5788047 EDIYMAQPEGFEDKKNPEKVCYLKPSLYGLKQSPRQWNLRFDEFMKGIGFVRSAFDSCVYYKKLGKTYTYLLLYVDDMLIASVDKSIVQELKLLL 5788141 *****************************************************************************************998766 PP RVT_2 190 kke.femkdlgelkyfLgleier..keegillsqekyvkkllkkfkmedakpvstple 244 ++ femkdlg++k++Lg+ei+r +++ ++lsqe+yvkk+l++++m+++kpvstp+ Chr1_3 5788142 -SK*FEMKDLGDAKKILGMEITRdrEAGILSLSQEAYVKKVLRSTHMDQSKPVSTPIG 5788198 .6********************975667789*************************86 PP == domain 15 score: 303.3 bits; conditional E-value: 8.7e-94 RVT_2 2 ktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleee 96 +twe+++lp gkk++g+kWvf++K +d ++erykARlV kG+tqkeg+dy++tfspv+k+++++lll+++a+k++ l+qlD+++aFLng+lee+ Chr1_3 5815056 DTWEITSLPLGKKAVGCKWVFTVKFLSDDSLERYKARLVFKGYTQKEGLDYTDTFSPVAKMATVKLLLKVSASKQWFLNQLDISNAFLNGDLEET 5815150 79********************************************************************************************* PP RVT_2 97 vYvkqpeGfedkkk....enkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelke 187 +Y+k peG+ d+k +n vc+Lkks+YgLkqa+r+W++kl+++l +lgf k + d++lf++ ++e+i+ l+YVDD++ia++++++ ++l++ Chr1_3 5815151 IYMKLPEGYADSKGdslpPNAVCRLKKSIYGLKQASRQWFKKLRNALVQLGFVKGHGDHTLFLRCFGTEFIAALVYVDDIVIASTTETAATQLTN 5815245 ***********99889999**************************************************************************** PP RVT_2 188 eLkkefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 +Lk++f++++lg lkyfLgle++r++egi+l+q+ky+ +ll++++m d++++stp+ + Chr1_3 5815246 ALKESFRLRELGPLKYFLGLEVARTSEGISLCQRKYALELLTSTGMLDCQHSSTPMIP 5815303 *******************************************************976 PP == domain 16 score: 336.6 bits; conditional E-value: 6e-104 RVT_2 1 nktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngelee 95 n+twel++lp+g+k+ig+kWv+k K+n++ge+erykARlVakG+ q++gidy+e+f+pv++le++rl+++laa++k++++q+Dvk+aFLng+lee Chr1_3 6005407 NDTWELTSLPNGHKTIGVKWVYKAKKNSKGEVERYKARLVAKGYIQRAGIDYDEVFAPVARLETVRLIISLAAQNKWKIHQMDVKSAFLNGDLEE 6005501 79********************************************************************************************* PP RVT_2 96 evYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLk 190 evY++qp+G+ +k++e+kv++Lkk+lYgLkqapraW++++++++++++f k+ ++++l++k ++e+++i +lYVDDl+++g++ ++ ee+k+e++ Chr1_3 6005502 EVYIEQPQGYIVKGEEDKVLRLKKALYGLKQAPRAWNTRIDKYFKEKDFIKCPYEHALYIKIQKEDILIACLYVDDLIFTGNNPSMFEEFKKEMT 6005596 *********************************************************************************************** PP RVT_2 191 kefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstple 244 kefem+d+g ++y+Lg+e++++++gi+++qe y+k++lkkfkm+d++pv tp+e Chr1_3 6005597 KEFEMTDIGLMSYYLGIEVKQEDNGIFITQEGYAKEVLKKFKMDDSNPVCTPME 6005650 ****************************************************97 PP == domain 17 score: 316.6 bits; conditional E-value: 7.4e-98 RVT_2 2 ktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleee 96 +twe+++lp +k++ig++W+fk+K+n+dg++erykARlVa+G+tqkegidy+etfspv+kl+s++lll +aa+ kl+l+qlD+++aFLng+l+ee Chr1_3 8789997 HTWEVCSLPADKRCIGCRWIFKIKYNSDGSVERYKARLVAQGYTQKEGIDYNETFSPVAKLNSVKLLLGVAARFKLSLTQLDISNAFLNGDLDEE 8790091 8********************************************************************************************** PP RVT_2 97 vYvkqpeGfedkkk....enkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelke 187 +Y++ p+G+ +++ +n vc+LkkslYgLkqa+r+Wy k+s++ll lgf +s +d++ f+k ++ +++vl+Y+DD++ia++++++++ lk+ Chr1_3 8790092 IYMRLPQGYASRQGdslpPNAVCRLKKSLYGLKQASRQWYLKFSSTLLGLGFIQSYCDHTCFLKISDGIFLCVLVYIDDIIIASNNDAAVDILKS 8790186 **********999889999**************************************************************************** PP RVT_2 188 eLkkefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 ++k+ f+++dlgelkyfLglei r+++gi++sq+ky+ +ll++++ +kp+s+p+++ Chr1_3 8790187 QMKSFFKLRDLGELKYFLGLEIVRSDKGIHISQRKYALDLLDETGQLGCKPSSIPMDP 8790244 ********************************************************86 PP >> ATHILA ATHILA ORF-1 family # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 503.0 0.0 7e-154 2e-153 1 324 [. 4591035 4591359 .. 4591035 4591362 .. 0.99 2 ! 394.2 0.1 6.7e-121 1.9e-120 1 276 [. 4781745 4782030 .. 4781745 4782032 .. 0.98 3 ! 167.9 0.0 3.1e-52 8.9e-52 277 457 .. 4797249 4797442 .. 4797240 4797443 .. 0.94 4 ! 560.0 0.0 3.5e-171 1e-170 39 442 .. 4812620 4813008 .. 4812618 4813016 .. 0.98 5 ! 54.9 0.0 5.7e-18 1.6e-17 102 369 .. 4815670 4815926 .. 4815665 4815951 .. 0.79 6 ! 69.4 2.8 2.2e-22 6.4e-22 2 74 .. 4819258 4819341 .. 4819257 4819346 .. 0.97 7 ! 139.9 0.0 9.6e-44 2.8e-43 277 442 .. 4819545 4819723 .. 4819536 4819736 .. 0.92 8 ! 87.9 0.1 5.8e-28 1.7e-27 354 458 .] 4831707 4831808 .. 4831706 4831808 .. 0.89 9 ! 488.9 0.0 1.3e-149 3.8e-149 8 458 .] 4958782 4959243 .. 4958769 4959243 .. 0.91 10 ! 46.4 0.0 2.2e-15 6.2e-15 174 234 .. 4960263 4960323 .. 4960263 4960325 .. 0.97 11 ! 102.7 0.0 1.8e-32 5.1e-32 288 458 .] 4960324 4960494 .. 4960321 4960494 .. 0.89 12 ! 676.7 0.0 1.4e-206 4e-206 1 458 [] 5062621 5063073 .. 5062621 5063073 .. 0.99 13 ! 133.0 1.5 1.2e-41 3.4e-41 2 123 .. 5400736 5400870 .. 5400735 5400880 .. 0.95 Alignments for each domain: == domain 1 score: 503.0 bits; conditional E-value: 7e-154 ATHILA 1 trreeiargkrvveseeevieE.dveveyepepvrrrtkelkkkdeltpeeYykllkelefegTryphketlaeLglledvdylfkkakletfms 94 +rr+eiargkr+++s++e+i + d+e+eyepe++r++tk+l+k+de+t+eeY++++++++f+gTryp++etla+Lglledv++lf+k++let+ms Chr1_3 4591035 QRRAEIARGKRAMSSKYELI-D*DIETEYEPESWRKETKLLNKPDEVTVEEYIRFFEMNDFWGTRYPCYETLAQLGLLEDVQHLFEKCHLETLMS 4591128 59*****************9.55599********************************************************************* PP ATHILA 95 ypyeaykeetveflstlelelyqesedrekeeeglGyitFkvkgveyslsikqleeifgFpskkgikpkfdkeeLksLwatiasklplnsarsKs 189 ypy+aykeet++flstl++e+y++++d e++++glG++tF+v++++y+lsik+le++fgFps+k +kp+fd eeLk+Lwati+++lplnsarsKs Chr1_3 4591129 YPYPAYKEETIQFLSTLQVEMYEALTDFELNTMGLGFLTFSVNEQRYQLSIKKLEKLFGFPSGKRTKPRFDIEELKDLWATIGNNLPLNSARSKS 4591223 *********************************************************************************************** PP ATHILA 190 nqirspvirylqrsiAnvlfsrestgtvtnselelldqaLkeiLrrtkdgrklkgdlndtslsvvLldhLlsYreyaatikkk.lrGslcvGGvv 283 nqirspviry+qr +Anv++srestgtv+n+++e++d+aL++iLr+t+++++l+gdln++++++ Ll+hL++Yr++a ++ kk +rG+lcvGGvv Chr1_3 4591224 NQIRSPVIRYFQRWVANVFYSRESTGTVSNTDMEMIDYALTGILRQTNEKNVLRGDLNNAPPVMSLLIHLCGYRKWALKNGKKkVRGALCVGGVV 4591318 ********************************************************************************9999*********** PP ATHILA 284 Tpiliavgvplsskglepraidldylkrkeflelkasdday 324 Tpil a+gvpl+++gl+pr++dld+l+r+efle++++ d+ Chr1_3 4591319 TPILEACGVPLKEPGLAPRMMDLDHLRRCEFLEFDMARDFR 4591359 *************************************9985 PP == domain 2 score: 394.2 bits; conditional E-value: 6.7e-121 ATHILA 1 trreeiargkrvves..........eeevieEdvev..eyepepvrrrtkelkkkdeltpeeYykllkelefegTryphketlaeLglledvdyl 83 ++ree+argkrv+e+ ee+v+eE+ve+ +++p+pv +r++++++k+e+tp+eYy++lkel+fegTryphket++eL ++ dv+yl Chr1_3 4781745 MQREEVARGKRVIEAeeehheeapfEEAVSEEEVEIieDDTPTPV-GRRNRPRRKREPTPSEYYQYLKELKFEGTRYPHKETMQELDICGDVEYL 4781838 68***********************************99******.************************************************* PP ATHILA 84 fkkakletfmsypyeaykeetveflstlelelyqesedrekeeeg.lGyitFkvkgveyslsikqleeifgFpskkgikpkfdkeeLksLwatia 177 ++ a+l+tfms+++ +ykee++++l+tl++++ + ++ekee+g lGyitFk+++vey+l+i++l++ifgFps++gi++++d+eeLksLw+ti+ Chr1_3 4781839 MELANLATFMSCQC-GYKEESCQLLATLKVHFG--VDNSEKEERGgLGYITFKIRDVEYTLDICHLDTIFGFPSGEGIRQDYDQEELKSLWKTIV 4781930 *************9.8***************88..9999******************************************************** PP ATHILA 178 sklplnsarsKsnqirspvirylqrsiAnvlfsrestgtvtnselelldqaLkeiLrrtkdgrklkgdlndtslsvvLldhLlsYreyaatikkk 272 +++p+++++sKs++ir+pviryl+++iAn+lf+++ t++v+++el+++dq+L++iLr+t+dgrk++ d++dtslsvvLldhLlsY+eyaati+++ Chr1_3 4781931 GPKPFSPTKSKSSSIRNPVIRYLHQCIANTLFPKKATAFVSEEELCMIDQSLVFILRETRDGRKMASDRADTSLSVVLLDHLLSYKEYAATIHRS 4782025 *********************************************************************************************** PP ATHILA 273 .lrGs 276 +r s Chr1_3 4782026 gIRES 4782030 88865 PP == domain 3 score: 167.9 bits; conditional E-value: 3.1e-52 ATHILA 277 lcvGGvvTpiliavgvplsskglepraidldylkrkeflelkasddayrykfehselkksellLpskevTtieekenIdfkPskeil........ 363 cvGG++Tpil avg+++ + ++ p++idldylk k+fle+++++d+y +kf+h el+ s l Lp++++T++++++nI+f+Ps ++l Chr1_3 4797249 FCVGGLLTPILEAVGMEFGTSNVFPKFIDLDYLKGKDFLEKTTPADRYLFKFNHLELGPSLLPLPCENQTSVKTRRNINFMPSPSALniniggar 4797343 7********************************************************************************************** PP ATHILA 364 ......sappedeaelte.eaeeedvdeededeeaelekfdtsqyhFeehappareskslsevhkklsklqkwckkqdkllkkllkkikklkkkl 451 s +++e ++ +++ee++++e+++++ e+ +++++q+h+ee + ++ +++ ++vhkkl++l++++++++k+lk+++k+++++kk+l Chr1_3 4797344 edepiySPTDYEQHEYFT*ADYEEQIEFEQHIDQPEHGTSEQEQAHYEEGV--DQRGDEFAKVHKKLGVLEELGNLHSKTLKGFKKNMRTMKKSL 4797436 999875333444455555778999**************************9..****************************************** PP ATHILA 452 kssssq 457 ks+++q Chr1_3 4797437 KSMAAQ 4797442 ***987 PP == domain 4 score: 560.0 bits; conditional E-value: 3.5e-171 ATHILA 39 elkkkdeltpeeYykllkelefegTryphketlaeLglledvdylfkkakletfmsypyeaykeetveflstlelelyqesedrekeeeglGyit 133 +l+k+de+t+eeY++++++++f+gTryp++etla+Lglledv++lf+k++l+t+msypy aykeet+eflstl++e+y++++d e++++ lG++t Chr1_3 4812620 LLNKPDEVTVEEYIRFFEMNDFWGTRYPCYETLAQLGLLEDVQHLFEKCHLDTLMSYPYAAYKEETIEFLSTLQVEMYEGLTDFELDTMSLGFLT 4812714 589******************************************************************************************** PP ATHILA 134 FkvkgveyslsikqleeifgFpskkgikpkfdkeeLksLwatiasklplnsarsKsnqirspvirylqrsiAnvlfsrestgtvtnselelldqa 228 F++++++y+lsik+lee+fgFps+kg+kp+fd+eeLk+Lwati+++lplns rs+Anv++srestgtv+n+++e++d+a Chr1_3 4812715 FSIDEQRYQLSIKNLEELFGFPSGKGTKPRFDREELKDLWATIGNNLPLNSV----------------RSVANVFYSRESTGTVSNTDMEMIDSA 4812793 *************************************************975................579************************ PP ATHILA 229 LkeiLrrtkdgrklkgdlndtslsvvLldhLlsYreyaatikkk.lrGslcvGGvvTpiliavgvplsskglepraidldylkrkeflelkasdd 322 L++iL+rtk++++l+gdln++++++ Ll+hL++Yr++a t+ k+ +rG+lcvGGvvTpil a+gv l+++gl+pr++dldyl+r+efle+++++d Chr1_3 4812794 LTGILHRTKGKNVLRGDLNNAPPVMPLLIHLCGYRKWALTNGKRnVRGALCVGGVVTPILEACGVSLKEPGLAPRMMDLDYLRRCEFLEFDMAGD 4812888 *******************************************99************************************************** PP ATHILA 323 ayrykfehselkksellLpskevTtieekenIdfkPskeil...sappedeaelteeaeeedvdeededeeaelekfdtsqyhFeehapparesk 414 ++ry+f+hs+++ +++lLp+ ++T+i e++nIdfkP+ e l ++pp++e+++teea++edvde+d+++eae fdts+yhF+eh+pp+resk Chr1_3 4812889 FHRYRFKHSSIRIANILLPCIDATRILEGRNIDFKPALEDLyfeGSPPTEEVSHTEEATTEDVDETDDIDEAE---FDTSMYHFSEHIPPSRESK 4812980 *************************************************************************...******************* PP ATHILA 415 slse.vhkklsklqkwckkqdkllkkllk 442 sl + +h+++ klqkwckk+dkll+k+l+ Chr1_3 4812981 SL-S*AHRNNNKLQKWCKKHDKLLSKCLR 4813008 *5.888*********************98 PP == domain 5 score: 54.9 bits; conditional E-value: 5.7e-18 ATHILA 102 eetveflstlelelyqesedrekeeeglGyitFkvkgveyslsikqleeifgFpsk.kgik..pkfdkeeLksLwatiasklplnsarsKsnqir 193 e +f +++ + y + dr+++ + G + F+v+gv+ysl+ ++l+ i+gF++ g++ +f ++ + +w + ++ ++ s ir Chr1_3 4815670 ELVRQFTASVRVY-Y--VNDRKLNVQE-GALIFFVRGVRYSLPLRELCDIYGFDNDlIGVAlpGQF--KDAQIFWSRFSNGIYDSKDAVHS-EIR 4815757 5555777777774.3..6666677666.9************************9964577743566..89999********7777766666.9** PP ATHILA 194 spvirylqrsiAnvlfsrestgtvtnselelldqaLkeiLrrtkdgrklkgdlndtslsvvLldhLlsYreyaatikkklrGsl.cvGGvvTpil 287 + v+ryl r+i ++lf + + g + sel +l + + ++++ d++++ v+++hL+s + t + k l vG ++Tpi+ Chr1_3 4815758 HLVLRYLVRLISSTLFCKMEPGKMRLSELLVLYHVVHDFFPDSLRFEEVD---RDVNVGAVFAHHLVSLKTKPFTGRGK---KLeRVGSLLTPIF 4815846 *************************************9997665555555...567899************99988766...45259999***** PP ATHILA 288 iavgvplsskglepraidldylkrkeflelka.sddayrykfehse.lkksellLpskevTtie.ekenIdfkPskeil.sapped 369 + ++ +++ ++ +d ++l++++ +d + + f +++ + + Lp+++ T+i+ e+e+++f+P+ + + +ap++ Chr1_3 4815847 EHFRISFEGEEVITTRFTMD----ESYLKKSH*LKDNFLWCFRDET*DY--MIQLPCTALTKITsEHEELSFCPDPSLMhAAPRTR 4815926 ***********999998887....567777778899******9987764..689*********835799******99985222222 PP == domain 6 score: 69.4 bits; conditional E-value: 2.2e-22 ATHILA 2 rreeiargkrvves..........eeevieEdvev..eyepepvrrrtkelkkkdeltpeeYykllkelefegTryphketlaeL 74 +ree+argkrv+e+ ee+v+eE+ve+ +++p+pv +r++++++k+e+tp+eYy++lkel+fegTryphket++eL Chr1_3 4819258 QREEVARGKRVIEAeeehheeapfEEAVSEEEVEIieDDTPTPV-GRRNRPRRKREPTPSEYYQYLKELKFEGTRYPHKETMQEL 4819341 79**********************************99******.***************************************9 PP == domain 7 score: 139.9 bits; conditional E-value: 9.6e-44 ATHILA 277 lcvGGvvTpiliavgvplsskglepraidldylkrkeflelkasddayrykfehselkksellLpskevTtieekenIdfkPskeil........ 363 cvGG++Tpil avg+++ + ++ p++idldylk k+fle+++++d+y +kf+h el+ s l Lp++++T+i++++nI+f+Ps ++l Chr1_3 4819545 FCVGGLLTPILEAVGMEFGTSNVFPKFIDLDYLKGKDFLEKTTPADRYLFKFNHLELGPSLLPLPCENQTSIKTRRNINFMPSPSALniniggar 4819639 7********************************************************************************************** PP ATHILA 364 ......sappedeaelte.eaeeedvdeededeeaelekfdtsqyhFeehappareskslsevhkklsklqkwckkqdkllkkllk 442 s +++e ++ +++ee++++e +++ e+ +++++q+h+ee + ++ +++ ++vhkkl++ ++++++++k++k++ Chr1_3 4819640 edepiySPTDYEQHEYFT*ADYEEQIEFEHYIDQPEHGTSEQEQAHYEEGV--DQRGDEFAKVHKKLGVREELGNLHSKTMKGFQE 4819723 999875333444455555778999**************************9..*****************************9976 PP == domain 8 score: 87.9 bits; conditional E-value: 5.8e-28 ATHILA 354 IdfkPskeil...sappedeaelteeaeeedvdeededeeaelekfdtsqyhFeehappareskslsevhkklsklqkwckkqdkllkkllkkik 445 Idf+ + +l +a p de++l eea+ d++ded+ +e fdts+yhF eh+pp reskslse+hk++sklqkwckkqdkll+k++k+ik Chr1_3 4831707 IDFRLEVGRLyyeNALPLDEDDLLEEAAL---DGMDEDRAVE---FDTSMYHFGEHVPPTRESKSLSEAHKNNSKLQKWCKKQDKLLAKCFKTIK 4831795 56666666666666677788888887776...**********...************************************************** PP ATHILA 446 klkkklkssssqt 458 +l++kl++sss+t Chr1_3 4831796 FLTDKLSCSSSTT 4831808 **********986 PP == domain 9 score: 488.9 bits; conditional E-value: 1.3e-149 ATHILA 8 rgkrvves.......eeevieEdvev.....eyepepvrrrtkelkkkdeltpeeYykllkelefegTryphketlaeLglledvdylfkkakle 90 r k +++ + e+++Ed e e+ + ++ +++++ + + Yykllk++ef+gTryph+et+++L +++dvdy+fk+++l+ Chr1_3 4958782 RNKADITQgmkpvgrRLELVDEDSEEdmaspEEDDQTEKGGDDDMESEKCAPRNKYYKLLKRNEFLGTRYPHPETMERLDIYDDVDYMFKQCSLN 4958876 44444444666666699999999888444443333334455567888888999****************************************** PP ATHILA 91 tfmsypyeaykeetveflstlelelyqesedr.ekeeeglGyitFkvkgveyslsikqleeifgFpskkgikpkfdkeeLksLwatiasklplns 184 ++m++p+e+y+eet++f+s++el ly+esed+ + e lGy++F+v++vey+l+i++le ++gFps+k+++++fdk+eL+s+wat++sk + s Chr1_3 4958877 IHMFRPMEGYEEETIQFISSVELLLYGESEDD*IRPDECLGYLEFCVYDVEYRLPIEHLELMYGFPSGKDTSHRFDKRELQSFWATLGSKHGFLS 4958971 **************************9999866555566******************************************************** PP ATHILA 185 arsKsnqirspvirylqrsiAnvlfsrestgtvtnselelldqaLkeiLrrtkdgrklkgdlndtslsvvLldhLlsYreyaatikkklrGslcv 279 +r Ksn irspv+ry++rs+A++lf+re++gt+ +elel+++aL+e+L+ +++g++l+gd+++ts+s+ L++hLlsYr++a+++kk+ G+++v Chr1_3 4958972 SRTKSNEIRSPVVRYFHRSLASALFAREQNGTFVLGELELIETALQELLGLASNGTVLAGDQTNTSVSFDLIEHLLSYRGWAKGLKKS--GRMVV 4959064 ***************************************************************************************9..***** PP ATHILA 280 GGvvTpiliavgvplsskglepraidldylkrkeflelkasddayrykfehselkksellLpskevTtieekenIdfkPskeilsappedeaelt 374 GvvTpil+a++vpl+s+ + pr+id++yl +++++ +++++ +y+y+f+h++ ++s +lLp++++T+i+++ nI+f+P+ e+l dea + Chr1_3 4959065 EGVVTPILRACNVPLHSTLIPPRWIDMQYLINSKSFWSQQKNGLYKYRFNHPTVGESIFLLPNPASTSIRDGGNIEFCPPMENL-YISGDEAVPM 4959158 ************************************************************************************.5567778888 PP ATHILA 375 eeaeeedv..deededeeaelekfdtsqyhFeehappareskslsevhkklsklqkwckkqdkllkkllkkikklkkklkssssqt 458 e+ +++++ +++++ee e+++t+q++Fee+ p + ++s +e+hk+l+ lq wc++qd +l l kk ++l+ k+++ss +t Chr1_3 4959159 EGVNDDEApiHHSNNEEELMDESYATQQFYFEEYSTPRQTKDS-KEIHKRLGFLQSWCNFQDMALISLNKKFNNLQLKISCSSTTT 4959243 88777777224555555555689********************.**************************************9875 PP == domain 10 score: 46.4 bits; conditional E-value: 2.2e-15 ATHILA 174 atiasklplnsarsKsnqirspvirylqrsiAnvlfsrestgtvtnselelldqaLkeiLr 234 at++sk ++s+r Ksn irspv+ry++ s+ ++lf+re+tgt+ n+ele+++ aL+ +L+ Chr1_3 4960263 ATLGSKHGFSSSRTKSNEIRSPVVRYFHWSLVSTLFARERTGTFVNGELEVMERALQDLLG 4960323 5899*******************************************************97 PP == domain 11 score: 102.7 bits; conditional E-value: 1.8e-32 ATHILA 288 iavgvplsskglepraidldylkrkeflelka.sddayrykfehselkksellLpskevTtieekenIdfkPskeilsappedeaelteeaeeed 381 a++vpl+s+ + pr+id+++l +++++ + + ++ +y+y+f+ +++++s lLp++ +T+i +++nI+f+P+ e+l dea +e+ ++++ Chr1_3 4960324 LACNVPLHSTLIPPRWIDMQHLINSKSFWS-Q*KNGLYKYRFDYPTIGQSISLLPNPVSTSISDGRNIEFCPPMENL-YISGDEAVPMEGVNDDE 4960416 59************************9965.555789****************************************.55678888888888888 PP ATHILA 382 vdeededeeae..lekfdtsqyhFeehappareskslsevhkklsklqkwckkqdkllkkllkkikklkkklkssssqt 458 ++ + +d+eae e+++t++++Fee+ p + ++s + +hk+l+ lq wck+qdk+++ l kk ++l+ k+++ss +t Chr1_3 4960417 APIHHSDNEAEpmDESYATQHFYFEEYSAPRQSKES-KVIHKRLGFLQSWCKLQDKAIAALNKKFNNLQLKISCSSTTT 4960494 7666655555522689************99887666.99************************************9875 PP == domain 12 score: 676.7 bits; conditional E-value: 1.4e-206 ATHILA 1 trreeiargkrvveseeevieEdveveyepepvrrrtkelkkkdeltpeeYykllkelefegTryphketlaeLglledvdylfkkakletfmsy 95 +r++eiargkr++ +++e+i+Ed+e+e +pe++rr+tk+l+k+d l++eeY++l+k +ef++Tryp+++ la+Lglledv++l+++++l+t+m+y Chr1_3 5062621 RRKDEIARGKRAMRERYELIDEDLEDECMPEQTRRATKLLHKPDILPAEEYVRLFKLNEFCSTRYPCSTSLAQLGLLEDVQHLYQSCHLDTLMAY 5062715 5899******************************************************************************************* PP ATHILA 96 pyeaykeetveflstlelelyqesedrekeeeglGyitFkvkgveyslsikqleeifgFpskkgikpkfdkeeLksLwatiasklplnsarsKsn 190 y+ay++et++flstl++elyq+++++e+++eglG+++F+v+g+ey+lsik+le +f Fps++g kpk+++eeLk+Lw+ti+s++pln++rsKsn Chr1_3 5062716 SYVAYEDETIQFLSTLQVELYQGMTSDELDCEGLGFLRFSVYGHEYRLSIKRLEGLFDFPSGTGSKPKYEREELKDLWITIGSSVPLNASRSKSN 5062810 *********************************************************************************************** PP ATHILA 191 qirspvirylqrsiAnvlfsrestgtvtnselelldqaLkeiLrrtkdgrklkgdlndtslsvvLldhLlsYreyaatikkk.lrGslcvGGvvT 284 qirspviry+qrs+Anvl+sre+tgtvtns++e++++aLk++Lr+tk+g++l+g++ndt+ls++Ll+hL++Y+++a+++++k +rG+lc+GGvvT Chr1_3 5062811 QIRSPVIRYFQRSVANVLYSREITGTVTNSDMEMIAMALKGTLRQTKNGMSLQGEVNDTPLSILLLIHLCGYKNWAVSNNRKrARGALCIGGVVT 5062905 *********************************************************************************************** PP ATHILA 285 piliavgvplsskglepraidldylkrkeflelkasddayrykfehselkksellLpskevTtieekenIdfkPskeil...sappedeaeltee 376 pilia+gvpl s+glepra+d+++l+++efle++++dd++r++fehs+++++++lLps+evT+i+e++nIdf+P+ +l +app de++l ee Chr1_3 5062906 PILIACGVPLISAGLEPRAMDIEHLRHCEFLEFAMVDDFHRFRFEHSTDRRANILLPSPEVTRIIEGDNIDFRPEIGRLyyeNAPPLDEDDLLEE 5063000 *********************************************************************************************** PP ATHILA 377 aeeedvdeededeeaelekfdtsqyhFeehappareskslsevhkklsklqkwckkqdkllkkllkkikklkkklkssssqt 458 a++ d++ded ++ fdts+yhF+eh+ppar+sksl+e+hk++sklqkwckkqd+l++k++k l++kl++sss+t Chr1_3 5063001 AAS---DGMDEDGAVQ---FDTSMYHFAEHVPPARQSKSLTEAHKNNSKLQKWCKKQDRLIAKCFK---LLTDKLSCSSSTT 5063073 ***...9********9...*********************************************97...5789999999875 PP == domain 13 score: 133.0 bits; conditional E-value: 1.2e-41 ATHILA 2 rreeiargkrvves...........eeevieEdvev..eyepepvrrrtkelkkkdeltpeeYykllkelefegTryphketlaeLglledvdyl 83 +ree+argkrv+e+ e+e++eEdve+ e+ p+ vrrr ++++kk+e+t+ee+y++l+el+fegTry h++t+++Lg+++dv+yl Chr1_3 5400736 AREEVARGKRVWEAepatiee*pmlEREASEEDVEIaeEVLPVLVRRRMNNPRKKKEPTIEEHYQYLMELSFEGTRYLHRPTIQALGICRDVEYL 5400830 69***********************************999******************************************************* PP ATHILA 84 fkkakletfmsypyeaykeetveflstlelelyqesedre 123 ++++kletf+sy++e+ykee+++fl+tl+l+++ + +r+ Chr1_3 5400831 MEMTKLETFFSYKCEGYKEESCQFLATLKLHFHADERQRK 5400870 *********************************6655554 PP >> RVT_1 Reverse transcriptase (RNA-dependent DNA polymerase) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 99.2 0.0 2.2e-31 6.3e-31 1 151 [. 2657241 2657407 .. 2657241 2657430 .. 0.94 2 ! 133.3 0.0 7.9e-42 2.3e-41 1 202 [. 2910217 2910448 .. 2910217 2910479 .. 0.93 3 ! 122.6 0.0 1.5e-38 4.3e-38 5 202 .. 3453520 3453747 .. 3453516 3453778 .. 0.91 4 ! 66.0 0.0 3.1e-21 8.9e-21 11 210 .. 3504569 3504852 .. 3504556 3504856 .. 0.91 5 ! 50.7 0.0 1.5e-16 4.2e-16 44 213 .. 3835453 3835586 .. 3835431 3835587 .. 0.90 6 ! 38.8 0.0 6.4e-13 1.8e-12 4 92 .. 4475828 4475926 .. 4475822 4475929 .. 0.87 7 ! 70.0 0.1 1.8e-22 5.2e-22 1 213 [. 4628750 4628909 .. 4628750 4628910 .. 0.97 8 ! 36.8 0.0 2.6e-12 7.4e-12 6 214 .] 4743900 4744056 .. 4743878 4744056 .. 0.92 9 ! 27.1 0.0 2.5e-09 7.2e-09 6 214 .] 4773702 4773858 .. 4773690 4773858 .. 0.85 10 ! 51.8 0.0 6.6e-17 1.9e-16 6 214 .] 4936973 4937129 .. 4936952 4937129 .. 0.93 11 ! 33.9 0.1 2e-11 5.7e-11 67 214 .] 5191914 5192030 .. 5191913 5192030 .. 0.91 12 ! 41.1 0.0 1.3e-13 3.6e-13 118 213 .. 5267737 5267825 .. 5267726 5267826 .. 0.93 13 ! 75.5 0.3 3.7e-24 1.1e-23 1 213 [. 5398493 5398652 .. 5398493 5398653 .. 0.96 14 ! 54.3 0.2 1.2e-17 3.3e-17 1 214 [] 5463364 5463524 .. 5463364 5463524 .. 0.95 15 ! 56.6 0.0 2.3e-18 6.7e-18 1 213 [. 5752790 5752949 .. 5752790 5752950 .. 0.96 16 ! 152.3 0.1 1.2e-47 3.4e-47 1 201 [. 5885895 5886125 .. 5885895 5886137 .. 0.96 17 ! 123.2 0.0 9.9e-39 2.9e-38 54 213 .. 6398407 6398599 .. 6398395 6398600 .. 0.95 Alignments for each domain: == domain 1 score: 99.2 bits; conditional E-value: 2.2e-31 RVT_1 1 ipkkg....tgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslht...........ikalnklsgskwllklDlkkaFdsiph 80 ipk + +++ Rpisl+sv +ki++k+l+krL++ l+ ++s+ + +f r + + +++++k+ ++ +++k+D++ka+d++++ Chr1_3 2657241 IPKVThpvlMSDLRPISLCSVLYKIVSKVLVKRLKPLLSLIVSDTQTAFVAERLISDnilvaheivhsLHTMDKFAKEYMAVKTDMSKAYDRVEW 2657335 566667778899*******************************************99***********8888*********************** PP RVT_1 81 dpllkkltafglpqrfirlikkllstrsravylegek.geiyesrglpqGsvlSPllfnlflheldkflrka 151 l +l+a+g++ +++++++ ++s++++av ++ + g i ++rgl+qG++lSP+lf+ +++ l + l++a Chr1_3 2657336 CYLRALLLALGFHLTWVNWMMMCVSSVTYAVLINDTPfGMIIPERGLRQGDPLSPFLFVMCTEGLTHLLNRA 2657407 ************************************99***************************9999886 PP == domain 2 score: 133.3 bits; conditional E-value: 7.9e-42 RVT_1 1 ipkkg....tgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslht...........ikalnklsgskwllklDlkkaFdsiph 80 ipk++ + + Rpisl+sv +ki++k++akrL++ l++++s+ + +f + r + + +k + ++s++ +++k D++ka+d++++ Chr1_3 2910217 IPKTQhpteMVDLRPISLCSVLYKIISKIMAKRLQPWLPEIVSDTQSAFVSERLITDnilvahelvhsLKVHPRISSEFMAVKSDMSKAYDRVEW 2910311 6777777888999******************************************99*********997777799******************** PP RVT_1 81 dpllkkltafglpqrfirlikkllstrsravylegek.geiyesrglpqGsvlSPllfnlflheldkflrkaf.............kprllyvrY 161 + l ++l+++g++ +++++i+ ++s+++++v ++ g i +rgl+qG++lSP+lf+l+++ l + l+ka +p ++++++ Chr1_3 2910312 SYLRSLLLSLGFHLKWVNWIMVCVSSVTYSVLINDCPfGLIILQRGLRQGDPLSPFLFVLCTEGLTHLLNKAQwegalegiqfsenGPMVHHLLF 2910406 ************************************99*********************************99********************** PP RVT_1 162 aDDiligaks.keeleeileeieeflkelglelnpeKtkith 202 aDD l+++k +e+ + ++++ + ++ g+++n +K++it Chr1_3 2910407 ADDSLFLCKAsREQSLVLQKILKVYGNATGQTINLNKSSITF 2910448 **********888899999999999999************96 PP == domain 3 score: 122.6 bits; conditional E-value: 1.5e-38 RVT_1 5 g....tgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslht...........ikalnklsgskwllklDlkkaFdsiphdpll 84 + +++ Rpisl+sv +ki++k+++krL+++l++l+s+++ +f p r + + +++++ +s++ +++k D++kaFd+++++ Chr1_3 3453520 KkpdkMTDLRPISLCSVMYKIISKIMVKRLQPFLPDLVSPNQSAFVPDRLISDniliahevvhgLRTHKTVSKEFIAIKSDMSKAFDRVEWNYVK 3453614 334699**********************************************9***********888889************************* PP RVT_1 85 kkltafglpqrf.irlikkllstrsravylegek.geiyesrglpqGsvlSPllfnlflheldkflrkaf.............kprllyvrYaDD 164 +l+a+g++q + +++ +++++s+ v ++ + g+i ++rgl+qG++lSP+lf l+ + l + +++a +p ++++++ DD Chr1_3 3453615 ALLEALGFHQ-K*VAWFMFMITSVSFTVLINDKAhGKIIPTRGLRQGDPLSPFLFILCSEGLTHLMNRAEsqslisgirfspnGPAIHHLLFTDD 3453708 *********5.24468888888888*****99955*********************************99************************* PP RVT_1 165 iligaks.keeleeileeieeflkelglelnpeKtkith 202 l+++k k+e+ i+++++ + + g+ +n eK++it Chr1_3 3453709 SLFMCKAdKKEVAVIKNIFKVYGDATGQMINFEKSSITF 3453747 *******9999**************************96 PP == domain 4 score: 66.0 bits; conditional E-value: 3.1e-21 RVT_1 11 pisllsvddkilqkllakrLeeileplfsepshgfrpgrslht..ikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqrfirlikkl 103 pi ++d+++ ++l ++Le+++e +fs shgfrpgr+ ht +++ +++ g++w++k+D++ d++++d +++l+++ ++++++ li++ Chr1_3 3504569 PI----FQDRVVHEVLLMILEPFFEARFSSKSHGFRPGRNPHTviRTIRSNFAGYLWFMKGDVSEMLDHVDVDVVMNCLQKVVKDRKVLGLIESS 3504659 55....789***********************************9666669*****************************************999 PP RVT_1 104 lst..................................................rsravylege.k.geiyesrglpqGsvlSPllfnlflheldk 146 l+ r++ + +e y+++ +vlSPll+n +l+eld+ Chr1_3 3504660 LKFsdkrvlkrvvekhgndnglgtkrrierekrnktkkkilsddepkpdpywlRTFYSFAPKEaAkVPSYGYC-----GVLSPLLANVCLNELDR 3504749 97799*****************************************998777755444443332224444444.....68*************** PP RVT_1 147 flrkaf.....................................kprllyvrYaDDiligaks.keeleeileeieeflke.lglelnpeKtkith 202 f+++++ +++ y+rY +lig+++ +e++ ++ +ei +f+ + g +l +K +i h Chr1_3 3504750 FMETKIveyfspckddsiwkesiedgchnpawpefvpssgkekTRKMDYIRYGGHFLIGIRGpREDAVKMRKEIIDFCDRvFGVRLDNSKLEIEH 3504844 **************************************************************8888***************************** PP RVT_1 203 ksdevkfl 210 s++++fl Chr1_3 3504845 ISRGIQFL 3504852 *******8 PP == domain 5 score: 50.7 bits; conditional E-value: 1.5e-16 RVT_1 44 gfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqrfirlikkllstrsravylegekgeiyesrglpqGsvlSPllfn 138 +++ ++++ ++g+ l+++D +++++ip+++ ++ t+f+++ +++y+++++p+G+ ++ + ++ Chr1_3 3835453 PLPHI-----DRMVEATTGNELLSFMDAFSGYNQIPMHKDDQEKTSFITD------------------------RGTYCYKVMPFGLNNAGARYQ 3835518 22222.....4458889*********************************........................789****************** PP RVT_1 139 lflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflkelglelnpeKtkithksdevkflGyv 213 +++++++ + + ++ +Y+DD+l+ +k+ ++ e+l+++ e l++++++lnp K+++ ++ +flGy Chr1_3 3835519 RLVNQMFAPQLGK-----TMEVYIDDMLVKSKKSADHIEHLTACFETLNKYNMKLNPAKCSFG--VTSGEFLGYI 3835586 ***********95.....9********************************************..********96 PP == domain 6 score: 38.8 bits; conditional E-value: 6.4e-13 RVT_1 4 kg.tgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslht........ikalnklsgs.kwllklDlkkaFdsiphdpllkklt 88 + ++++Rpisl++v +k + k ++ L++++++l+ +++ f pgr + +++++k + + ++l+klDl+ka+d+i++d+ +l+ Chr1_3 4475828 PEkITQFRPISLCNVLFKTITKTMVEWLKPVMSKLIGPDQSSFIPGRLSADnivvqeavHSMQRKKGVKgWMLIKLDLEKAYDRIRWDFMEYTLR 4475922 33679********************************************99*******755544444446999****************999998 PP RVT_1 89 afgl 92 g+ Chr1_3 4475923 VAGF 4475926 7665 PP == domain 7 score: 70.0 bits; conditional E-value: 1.8e-22 RVT_1 1 ipkkgtgkyRp.isllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpq 94 ++kk+ g++R+ i d++ l+++++k ++p + ++++ l++l+g+++++k+Dl +++++ip+++++ taf + Chr1_3 4628750 VKKKD-GSFRLcI-----DYRELNRVTVK---------NKYPLPRIDEL--------LDQLRGATCFSKIDLTSGYHQIPIAEADVRKTAFRTR- 4628820 689*9.*****88.....***********.........***********........999******************************9999. PP RVT_1 95 rfirlikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflkel 189 +++e+ ++p+G+ ++P+ f+++++ +++++ + +++ ++DDil+++ks+ee+e +l+++ e l+e Chr1_3 4628821 -----------------------YGHFEFVVMPFGLTNAPAAFMRLMNSVFQEFLDE-----FVIIFIDDILVYSKSPEEHEVHLRRVMEKLREQ 4628887 .......................789*****************************97.....6******************************** PP RVT_1 190 glelnpeKtkithksdevkflGyv 213 +l + +K+++ ++++ flG+ Chr1_3 4628888 KLFAKLSKCSFR--QRKMGFLGHI 4628909 ************..********85 PP == domain 8 score: 36.8 bits; conditional E-value: 2.6e-12 RVT_1 6 tgkyRp.isllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqrfirl 99 +++ R+ i d+++l++ +k ++ p + ++++ l++l ++ ++ +lD ++F++ip++p ++ t f++p Chr1_3 4743900 ITGHRMcI-----DYRKLNATYRK---------DHFPLPFIDQM--------LERLANHPYYCFLDGYSGFFQIPIHPNDQEKTTFTCP------ 4743966 78899977.....***********.........**********9........899**********************************...... PP RVT_1 100 ikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflkelgleln 194 +++ ++++p+ + ++ + f++++ ++++l + ++ +++DD+ ++ s + + l ++ + ++e +l ln Chr1_3 4743967 ------------------YGTFAYKRIPFSLCNALATFQRCMTSIFSDLIEE-----MVEVFMDDFSVYGPSFSSCLLNLCRVLTRCEETNLVLN 4744038 ..................789*****************************96.....7************************************* PP RVT_1 195 peKtkithksdevkflGyvi 214 eK++++ +e +lG++i Chr1_3 4744039 WEKCHVM--VNEGIVLGHKI 4744056 *******..99999999976 PP == domain 9 score: 27.1 bits; conditional E-value: 2.5e-09 RVT_1 6 tgkyRp.isllsvddkilqkllakrLeeileplfsepshgfr.pgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqrfir 98 +++ R+ i d+++l+++++k ++ p + ++ l++l ++k++ ++D +F++ip++p ++ t f++p Chr1_3 4773702 ITGHRMcI-----DYRKLNAATRK---------DHFPLPFID*M---------LERLANHKYYCFFDGYLGFFQIPIHPDDQEKTTFTCP----- 4773768 55666655.....77777777777.........66333333222.........245799*******************************..... PP RVT_1 99 likkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflkelglel 193 +++ +r++p+ + ++P+ f + + ++ ++ + + +++DD+ ++ +s e++ e l ++ + ++e +l l Chr1_3 4773769 -------------------YGTFAYRRMPFSLCNAPATFYRGMMSIFTNMIED-----IMEVFMDDFSVYESSFEDCLENLCKVLARCEEKHLVL 4773839 ...................789*******************999999999986.....6************************************ PP RVT_1 194 npeKtkithksdevkflGyvi 214 n eK++++ + +lG++i Chr1_3 4773840 NWEKCHFM--VQDGIVLGHRI 4773858 ********..88888888765 PP == domain 10 score: 51.8 bits; conditional E-value: 6.6e-17 RVT_1 6 tgkyRp.isllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqrfirl 99 +++ R+ i d+++l+++++k ++ p + ++++ l++l ++ ++ +lD ++F++ip++p ++ t f++p Chr1_3 4936973 ITGHRMcI-----DYRKLNAASRK---------DHFPLPFIDQM--------LERLANHPYYCFLDGYSGFFQIPIHPNDQEKTTFTCP------ 4937039 68889977.....***********.........***********........899**********************************...... PP RVT_1 100 ikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflkelgleln 194 +++ ++ +p+G+ ++P+ f++++ ++++l + ++ +++DD+ ++ +s + + l ++ + ++e +l ln Chr1_3 4937040 ------------------YGTFAYKHMPFGLCNAPATFQRCMTSIFSDLIEE-----MVEVFMDDFFVYGSSFSSCLLNLCRVLKRCEETNLVLN 4937111 ..................789*****************************96.....7************************************* PP RVT_1 195 peKtkithksdevkflGyvi 214 eK++++ +e +lG++i Chr1_3 4937112 WEKCQFM--VREGIVLGHKI 4937129 *******..99999999976 PP == domain 11 score: 33.9 bits; conditional E-value: 2e-11 RVT_1 67 lklDlkkaFdsiphdpllkkltafglpqrfirlikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrY 161 +k+Dl + +++i++ +l+ taf++ ++ye+ ++p+ + ++P f+++++e++++ + +++ + Chr1_3 5191914 SKIDLASRYHQISILELDVMKTAFQTR------------------------YGQYEFVVMPFELTNAPPAFMRLMNEVLHDYLDS-----FVIIF 5191979 677777777777777777777777777........................789*****************************95.....7**** PP RVT_1 162 aDDiligakskeeleeileeieeflkelglelnpeKtkithksdevkflGyvi 214 +DDil++++s ee++e+ ++ + l+e +l + +K+k++ ++e+ flG++i Chr1_3 5191980 IDDILVYSRSAEEHREHQWKVLDRLREQRLFAKFSKCKFW--QREIGFLGHRI 5192030 ****************************************..********987 PP == domain 12 score: 41.1 bits; conditional E-value: 1.3e-13 RVT_1 118 geiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflkelglelnpeKtkithksdevkflGy 212 + +e+ ++p+G++++P+ f+++++ +++++ + +++ ++DDil+++ks+ee+e +l+++ e l+e +l + +K+ ++ ++e+ flG+ Chr1_3 5267737 RWNFEYVVMPFGFINAPAAFMRLMNIVFQEFLDE-----FVIIFIDDILVYSKSPEEHELHLRRVMEKLREQKLFAKLSKCNFW--QREMSFLGH 5267824 5567899*************************97.....6********************************************..********8 PP RVT_1 213 v 213 Chr1_3 5267825 I 5267825 5 PP == domain 13 score: 75.5 bits; conditional E-value: 3.7e-24 RVT_1 1 ipkkgtgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqr 95 +pkk+ g++R+ vd+++++ +++k +p + ++++ l+kl+gs +++klDlk+++++i++++ +++ taf+++ Chr1_3 5398493 VPKKD-GSWRMC----VDCRAINNITVK---------YRHPIPRLDDM--------LDKLHGSSIFSKLDLKSGYYQIQMKEGDEWKTAFKTK-- 5398563 79***.*****5....5***********.........99999999999........99**********************************9.. PP RVT_1 96 firlikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflkelg 190 ++ ye+ ++p+G+ ++P f++++++++++ +++v+Y DDil+++k+ e++ +l+ + + l++++ Chr1_3 5398564 ----------------------QGLYEWLVMPFGLTNAPSTFMRLMNHVLRKHIG-----VFVVVYFDDILVYTKNLENHVMHLKLVLDLLRKEK 5398631 ......................889************************999998.....89********************************* PP RVT_1 191 lelnpeKtkithksdevkflGyv 213 l n +K++++ +d++ lG+ Chr1_3 5398632 LYANLKKCTFC--TDNLVCLGFI 5398652 ***********..9999999985 PP == domain 14 score: 54.3 bits; conditional E-value: 1.2e-17 RVT_1 1 ipkkgtgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqr 95 ++kk+ +++R vd+ ++++++ ++ p + ++ + l++l+g+ +++k+Dl +++++i+++p++ taf + Chr1_3 5463364 VKKKD-SSWRFC----VDYCAINRATIP---------DKFPIPVIELL--------LDELHGAMIFSKIDLCSGYHQIRMKPEDIEKTAFHTL-- 5463434 68999.*****5....5***********.........99888888888........999******************************8888.. PP RVT_1 96 firlikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflkelg 190 +++ye+ ++ +G+ ++P+ f+ +++++k+l ++ +++++ D ili++ s+e + ++l+e+ + l++++ Chr1_3 5463435 ----------------------EGHYEFLVMSFGLTNAPATFQSSMNRISKKLLRK-----FVLVFFDHILIYSPSVESHVKHLREVLQLLADNK 5463502 ......................88******************************97.....6********************************* PP RVT_1 191 lelnpeKtkithksdevkflGyvi 214 l n++K+++ ++v++lG+ i Chr1_3 5463503 LYENMKKCSFG--VQQVEYLGHII 5463524 ***********..********976 PP == domain 15 score: 56.6 bits; conditional E-value: 2.3e-18 RVT_1 1 ipkkgtgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqr 95 ++kk+ gk+R vd+ l+k++ k ++ p ++++++ ++ ++g+ +l+++D +++++i ++p ++ t+f+++ Chr1_3 5752790 VKKKN-GKWRVC----VDFTDLNKACPK---------DCFPLPHIDRL--------VESTTGHEMLSFMDAFSGYNQILMNPDDQEKTSFITE-- 5752860 68999.*****5....5***********.........***********........889**********************************.. PP RVT_1 96 firlikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskee.leeileeieeflkel 189 +++y+++++p+G++++ + +++++++++k+l + ++ +Y+DD+l+ ++s ++ + +l+++ ++l+e Chr1_3 5752861 ----------------------RGTYCYKVMPFGLKNAGATYQRLVNRMFKDLLGK-----TMEVYIDDMLVKSTS-ST*HFGHLQQCFDILNEF 5752927 ......................789*****************************95.....9*********99888.88**************** PP RVT_1 190 glelnpeKtkithksdevkflGyv 213 g++lnp+K+++ ++ +flGy Chr1_3 5752928 GMKLNPSKCTFA--VPSGEFLGYI 5752949 ************..********96 PP == domain 16 score: 152.3 bits; conditional E-value: 1.2e-47 RVT_1 1 ipkkg....tgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslht...........ikalnklsgskwllklDlkkaFdsiph 80 ipk+ +++ Rpisl++v +k+++k+l++rL+++l++l+se + +f +gr + + +++++ + + +++k+D++ka+d++++ Chr1_3 5885895 IPKTErptrMTELRPISLCNVGYKVISKILCQRLKTVLPNLISETQSAFVDGRLISDniliaqemfhgLRTNSSCKDKFMAIKTDMSKAYDQVEW 5885989 6888888899**********************************************9***********7777789******************** PP RVT_1 81 dpllkkltafglpqrfirlikkllstrsravylegek.geiyesrglpqGsvlSPllfnlflheldkflrkaf.............kprllyvrY 161 +++ +l+++g+++++i++i+ +++t++++v ++g+ g i ++rgl+qG++lSP+lf l+++ l ++rka +p + ++++ Chr1_3 5885990 NFIEALLRKMGFCEKWISWIMWCITTVQYKVLINGQPkGLIIPERGLRQGDPLSPYLFILCTEVLIANIRKAErqnlitgikvatpSPAVSHLLF 5886084 ************************************65*********************************99********************** PP RVT_1 162 aDDiligaks.keeleeileeieeflkelglelnpeKtkit 201 aDD l+++k ke++ ile+++++ + +g+++n +K++i Chr1_3 5886085 ADDSLFFCKAnKEQCGIILEILKQYESVSGQQINFSKSSIQ 5886125 **********8999************************986 PP == domain 17 score: 123.2 bits; conditional E-value: 9.9e-39 RVT_1 54 ikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqrfirlikkllstrsravylegek.geiyesrglpqGsvlSPllfnlflheldkf 147 +++++ ++++++k+D++kaFds+++++l++ l a+++p+ fi++i+++++t+s++v+++ge g++++ rg++qG+ lSP+lf++ ++ l+k+ Chr1_3 6398407 KDYHKSNVSTRCAMKIDISKAFDSLQWSFLINALSAMNFPGEFIHWISRCITTTSFSVQVNGELaGYFRSARGIRQGCALSPYLFVISMEVLSKM 6398501 55666677889****************************************************88****************************** PP RVT_1 148 lrkaf............kprllyvrYaDDiligaks.keeleeileeieeflkelglelnpeKtkith...................ksdevkfl 210 l +a+ + +l+++++aDD++i++++ ++ + i+e ++ f+k++gl++n+eKt++++ + +v++l Chr1_3 6398502 LDQAAggkrfgfhpkckNLGLTHLCFADDLMILTDGkVRSVDGIVEVMNLFAKRSGLQINMEKTTLYTagvsdhnrymmisrypfglGQLPVRYL 6398596 ************************************8888****************************9*9999999999999999999999999 PP RVT_1 211 Gyv 213 G++ Chr1_3 6398597 GLP 6398599 986 PP >> rve Integrase core domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 68.2 0.0 6.9e-22 2e-21 2 119 .. 3309697 3309812 .. 3309696 3309813 .. 0.89 2 ! 72.3 0.1 3.6e-23 1e-22 3 118 .. 4137641 4137756 .. 4137639 4137758 .. 0.96 3 ! 84.2 0.0 7.5e-27 2.2e-26 5 119 .. 4480889 4481003 .. 4480886 4481004 .. 0.96 4 ! 50.3 0.1 2.4e-16 6.9e-16 6 119 .. 4629278 4629389 .. 4629276 4629390 .. 0.94 5 ! 32.4 0.0 8.3e-11 2.4e-10 24 118 .. 4674401 4674494 .. 4674383 4674496 .. 0.93 6 ! 62.5 0.0 3.9e-20 1.1e-19 6 118 .. 4747097 4747206 .. 4747094 4747208 .. 0.96 7 ! 25.3 0.0 1.3e-08 3.8e-08 55 119 .. 4815155 4815218 .. 4815148 4815219 .. 0.87 8 ! 61.5 0.0 7.8e-20 2.3e-19 2 119 .. 5392936 5393054 .. 5392935 5393055 .. 0.93 9 ! 47.1 0.0 2.3e-15 6.6e-15 9 111 .. 5398994 5399095 .. 5398992 5399096 .. 0.97 10 ! 68.9 0.0 4.2e-22 1.2e-21 3 116 .. 5753489 5753600 .. 5753487 5753604 .. 0.96 11 ! 78.6 0.1 4.1e-25 1.2e-24 3 119 .. 5787581 5787699 .. 5787579 5787700 .. 0.93 12 ! 59.3 0.1 4e-19 1.1e-18 5 118 .. 5814700 5814811 .. 5814698 5814813 .. 0.94 13 ! 75.5 0.0 3.8e-24 1.1e-23 6 117 .. 5840814 5840923 .. 5840811 5840925 .. 0.97 14 ! 92.9 0.0 1.5e-29 4.2e-29 3 119 .. 6005067 6005184 .. 6005065 6005185 .. 0.97 15 ! 82.4 0.0 2.7e-26 7.9e-26 2 118 .. 6482633 6482748 .. 6482632 6482750 .. 0.95 16 ! 32.0 0.0 1.1e-10 3.2e-10 2 76 .. 7250068 7250143 .. 7250067 7250145 .. 0.97 17 ! 92.0 0.1 2.9e-29 8.4e-29 2 118 .. 8789628 8789742 .. 8789627 8789744 .. 0.98 Alignments for each domain: == domain 1 score: 68.2 bits; conditional E-value: 6.9e-22 rve 2 atrpgelwqiDvt.pgripskggkaylltaiddfsrfi.vaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgir 94 +t+ +el+++D + p+ + + g++y++++idd+sr+ ++ + +++a+++ +ve+ g +++++++D+g ef+s++f ++++++gi+ Chr1_3 3309697 ETKVLELIHGDLCgPITPTTLAGNRYVFVLIDDCSRYM*TILLKEKS---DAFAKFMS-LVEQELGLKIQTFRTDRGGEFVSQEFNSFCNSYGIK 3309787 57889*******************************96655443333...45556665.889999999*************************** PP rve 95 hkftrpyrpqdngkvErfnrtlkee 119 + +py+pq+ng+vEr n tl+e+ Chr1_3 3309788 RHIIAPYTPQQNGVVERHNITLMEM 3309812 **********************987 PP == domain 2 score: 72.3 bits; conditional E-value: 3.6e-23 rve 3 trpgelwqiDvtpgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkf 97 + p+e++++D ++ +++s g +y + ++d fs+f ++++l+++ ++++ + ++ v ++g+++++l++Dn e+ +++f ++++++gir++f Chr1_3 4137641 NSPFEIIHSDLWTSPVSSLSGIRYYVLFLDQFSHFLWVYPLRNKIDVFSKFLQCHTYVNTQFGKHIQSLQCDNVVEYNNSQFHDFFAKHGIRFCF 4137735 689*****************************************999999999999*************************************** PP rve 98 trpyrpqdngkvErfnrtlke 118 ++py++q+ng Er++rt+++ Chr1_3 4137736 SCPYTSQQNGRSERMIRTINN 4137756 ******************986 PP == domain 3 score: 84.2 bits; conditional E-value: 7.5e-27 rve 5 pgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkft 98 +el+++D p++ +s gk+y+l+++dd+srf+++++l+ + +a++ +++l ++ +g+ ++sD+g ef++++fe++++ girh+f+ Chr1_3 4480889 VLELVHMDLMgPVQTESLSGKKYILVLVDDYSRFTWVRFLREKFEAAESFKILALQLQTEKGN-LVQIRSDHGGEFQNEEFEKFCRIQGIRHQFS 4480982 689****************************************99999999999999999999.8****************************** PP rve 99 rpyrpqdngkvErfnrtlkee 119 +p++pq+ g+vEr+nrtl+e+ Chr1_3 4480983 APRTPQQSGVVERKNRTLQEM 4481003 ******************997 PP == domain 4 score: 50.3 bits; conditional E-value: 2.4e-16 rve 6 gelwqiDvtpgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkftrp 100 ++ +++D+++g + s+ k +++++d+ ++ +++ a+++++ a+++a+ + + + + v p +++sD+ s fts+ ++a+ + +g++++++++ Chr1_3 4629278 WDFITMDFVVGLPVSRT-KDAIWVIVDRLTKSTYFLAIRKTDGAAVLAKKYVSEIVKLHRV-PVSIVSDRDSKFTSAFWRAFQAVMGTKVQMSTV 4629370 66789****66655555.8******************************************.********************************* PP rve 101 yrpqdngkvErfnrtlkee 119 y+pq+ g+ Er+++tl+++ Chr1_3 4629371 YHPQTDGQSERTIQTLEDM 4629389 ****************997 PP == domain 5 score: 32.4 bits; conditional E-value: 8.3e-11 rve 24 kaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkftrpyrpqdngkvErfnrtlke 118 k+ +l+++d+ s++ +++ lk+ a +va+++ + v + +g p +++sD+ ++f s+ +++ +k g+++k++++ +pq+ g+ E nrtl++ Chr1_3 4674401 KNVILVVVDRLSKYGHFIGLKHPFNAVDVARIFIHEVVKLHGF-PASIVSDRDNTFLSSFWKDCFKLSGTKLKYSTAFHPQTDGQTEVLNRTLET 4674494 7899**************************************7.*************************************************87 PP == domain 6 score: 62.5 bits; conditional E-value: 3.9e-20 rve 6 gelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkftr 99 +++w iD+ p++ +s+g ++y+l+a+d s+++ a+a ++ +a+++++l+++++ r+gv ++++sD g+ f +k fe+llk++g++hk t+ Chr1_3 4747097 FDVWGIDFMgPFP-SSYG-NKYILVAVDYVSNRVEAIASPTN-DAKVMLKLFKTIIFPRFGV-LRVVISDGGKHFINKVFENLLKKYGVKHKVTT 4747187 689******9999.6666.8**********************.*******************.8******************************* PP rve 100 pyrpqdngkvErfnrtlke 118 py+pq+ +vE +nr +k+ Chr1_3 4747188 PYHPQTSEQVEISNREIKT 4747206 ****************997 PP == domain 7 score: 25.3 bits; conditional E-value: 1.3e-08 rve 55 lleraverrggvepkrllsDngseftskafeallkelgirhkftrpyrpqdngkvErfnrtlkee 119 ++e++ ++ v p +++sD g+ f +k + +l+ ++g++h+ ++p +pq+ g+vE +nr +ke Chr1_3 4815155 CHETLQLYHFRV-PCIVISDGGKHFINKILAKLVLQYGVQHRVATPFHPQTSGQVEVSNRQIKEI 4815218 555555566666.999**********************************************986 PP == domain 8 score: 61.5 bits; conditional E-value: 7.8e-20 rve 2 atrpgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadllerave.rrggvepkrllsDngseftskafeallkelgir 94 at+ +el++ D + p+++++ g+++++++iddfsr+ +++ lk +s+ ++ l+ ++e g ++++++D+g efts++++ ++ + g++ Chr1_3 5392936 ATKILELVHRDLFgPIKPSTMAGNRCVFVLIDDFSRYMLTVLLKEKSEDLKKFKKLKSLAE*ETGAS-IQIFRTDRGGEFTSQELKMFCDNTGVK 5393029 577899****************************************999999999997776645554.99************************* PP rve 95 hkftrpyrpqdngkvErfnrtlkee 119 + t+py+pq+n++vEr n +l+e+ Chr1_3 5393030 RHLTAPYTPQQNAIVERRNIILMEM 5393054 *******************999986 PP == domain 9 score: 47.1 bits; conditional E-value: 2.3e-15 rve 9 wqiDvtpgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkftrpyrp 103 +++D+++g + +++gk +++++d+fs+++++++++++++a++va l+ r v r +g pk+++ D+ + f s +++l ++lg+++ f+++++p Chr1_3 5398994 ISMDFVVGLPRTRNGKDSIFVVVDRFSKMAHFIPCHKTDDASHVASLFFREVVRLHGI-PKTIVFDRDTKFLSYFWKTLWSKLGTKLLFSTTCHP 5399087 78****9999************************************************.************************************ PP rve 104 qdngkvEr 111 q+ g+ E Chr1_3 5399088 QTDGQTEV 5399095 *****995 PP == domain 10 score: 68.9 bits; conditional E-value: 4.2e-22 rve 3 trpgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhk 96 + p+ +w++D++ p+ ++++g ++ll+++d fs+++ a a+++ ++ +v +++++ + r++ p ++++Dngs+f s++fea+++e+ ir++ Chr1_3 5753489 PYPFMKWSMDIVgPLHVSTRG-VRFLLVLTDYFSKWVEAAAYSNI-THVQVRNFIWKDIICRHDL-PYEIVTDNGSQFISEQFEAFCEEWRIRLS 5753580 67999***********99999.9**********************.99999999999*******9.***************************** PP rve 97 ftrpyrpqdngkvErfnrtl 116 +++p+ pq+n ++E +n+t+ Chr1_3 5753581 HSTPRYPQENRQAEAMNKTI 5753600 *******************8 PP == domain 11 score: 78.6 bits; conditional E-value: 4.1e-25 rve 3 trpgelwqiDvt..pgripskggkaylltaiddfsrfivaealkdessaetvadlleraver.rggvepkrllsDngseftskafeallkelgir 94 ++++ +++D + p ++ s g+ +y++ ++dd+sr++++++lk++++a++ + ++++ve+ + +k+l++Dng e++++ fe+++k+ gi Chr1_3 5787581 KEKLAYIHSDLWgsPHNPASLGNCQYFISFVDDYSRKVWIYFLKKKDEAFEKFVEWKKMVEN*SDKK-VKKLRTDNGLEYCNHYFEKFCKDEGIV 5787674 577889********999999**9***********************999999999999998886665.99************************* PP rve 95 hkftrpyrpqdngkvErfnrtlkee 119 + t++y+pq+ng++Er nrt++++ Chr1_3 5787675 RHKTCAYTPQQNGIAERLNRTIMDK 5787699 **********************986 PP == domain 12 score: 59.3 bits; conditional E-value: 4e-19 rve 5 pgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelg...irh 95 +el++iDv+ p++ ++++g++y++t++dd+sr ++++ l++++++ tv+ + + ve++ + ++k+++sDn +e+ f+a+ ++ i + Chr1_3 5814700 AFELLHIDVWgPFSEETVDGFKYFFTIVDDHSRATWVYLLRHTNEVLTVFPDFITQVENQYNTKVKSVRSDNERELS---FTAF---YK*kgIVP 5814788 5899*******9999*************************************************************9...6666...54445*** PP rve 96 kftrpyrpqdngkvErfnrtlke 118 ++++p +p++n++vEr+++++ + Chr1_3 5814789 YHSCPETPEQNSVVERKHQHILN 5814811 ********************975 PP == domain 13 score: 75.5 bits; conditional E-value: 3.8e-24 rve 6 gelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkftr 99 ++l++iD++ p+++++++g++y+lt++dd+sr ++++ l+++s++ tv+ ++ + ve++ v++k ++sDn++e++ f++l ++ gi +++ Chr1_3 5840814 FDLLHIDIWgPFSVETVDGYKYFLTIVDDHSRATWIYLLRNKSEVLTVFPAFIEQVENQYKVRVKAVRSDNAPELK---FTSLYQQKGIVSFHSC 5840905 789*************************************************************************...**************** PP rve 100 pyrpqdngkvErfnrtlk 117 p +p++n +vEr+++++ Chr1_3 5840906 PETPEQNLVVERKHQHIL 5840923 ****************96 PP == domain 14 score: 92.9 bits; conditional E-value: 1.5e-29 rve 3 trpgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhk 96 ++ +el+++Dv+ p++++s g+ +y+l +iddfsr++++++lk +s+++++++ +++ ve+ g +k+++sD+g eftsk+f ++++++gir + Chr1_3 6005067 QKSLELIHTDVCgPIKPKSLGKSNYFLLFIDDFSRKTWVYFLKEKSEVFEIFKKFKAHVEKESGLVIKTMRSDRGGEFTSKEFLKYCEDNGIRRQ 6005161 6789******************************************************************************************* PP rve 97 ftrpyrpqdngkvErfnrtlkee 119 t p++pq+ng++Er+nrt+ e+ Chr1_3 6005162 LTVPRSPQQNGVAERKNRTILEM 6005184 ********************986 PP == domain 15 score: 82.4 bits; conditional E-value: 2.7e-26 rve 2 atrpgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirh 95 +t+ +e++++D++ p+ ps g +y+lt++dd+sr ++ + +k++s+++t ++ + ++v r++g+++++l+sDng ef ++++++ + gi h Chr1_3 6482633 TTEIFEMIHCDIWgPYCEPSSSGARYFLTIVDDYSRGTWLYLMKNKSDTQTKLRDFIALVDRQFGKKVRVLRSDNGGEFL--SLTSYFLASGIVH 6482725 577899********777788888*********************************************************..69*********** PP rve 96 kftrpyrpqdngkvErfnrtlke 118 +++++++pq+ng vEr++r+l + Chr1_3 6482726 ETSCVGTPQQNGRVERKHRHLLN 6482748 ********************976 PP == domain 16 score: 32.0 bits; conditional E-value: 1.1e-10 rve 2 atrpgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDng 76 a+rp+e++++D + p ++ s++g +y +++id +srf ++++lk +s+ +++ +++++ve++ g+++ ++++D g Chr1_3 7250068 ANRPLERVHCDLWgPSPVISVQGLRYYAVFIDHYSRFSWIYPLKLKSDFYSTFIAFHKLVENQLGQKITVFQCDGG 7250143 689***********************************************************************88 PP == domain 17 score: 92.0 bits; conditional E-value: 2.9e-29 rve 2 atrpgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirh 95 +rp++l++iD++ p+++++++g++y+lt++dd+sr ++++ l+++s++ tv+ +++++ve++++ ++k ++sDn++e+ f+++ + gi + Chr1_3 8789628 SSRPFDLIHIDTWgPFSVQTHDGYRYFLTIVDDYSRATWVYLLRNKSDVLTVIPTFVTMVENQFETTIKGVRSDNAPELN---FTQFYHSKGIVP 8789719 589*****************************************************************************...************ PP rve 96 kftrpyrpqdngkvErfnrtlke 118 ++++p +pq+n++vEr+++++ + Chr1_3 8789720 YHSCPETPQQNSVVERKHQHILN 8789742 ********************975 PP >> Retrotrans_gag Retrotransposon gag protein # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 47.9 0.1 1.1e-15 3.1e-15 3 95 .. 4445139 4445226 .. 4445137 4445227 .. 0.91 2 ! 33.9 0.0 2.6e-11 7.5e-11 1 94 [. 4531688 4531780 .. 4531688 4531782 .. 0.91 3 ! 68.1 0.2 5.3e-22 1.5e-21 2 96 .] 4553748 4553843 .. 4553747 4553843 .. 0.98 4 ! 58.4 0.0 5.8e-19 1.7e-18 1 94 [. 4596361 4596453 .. 4596361 4596455 .. 0.98 5 ! 78.8 0.4 2.5e-25 7.2e-25 2 96 .] 4628349 4628444 .. 4628348 4628444 .. 0.98 6 ! 24.1 0.0 2.8e-08 8.2e-08 27 94 .. 4643531 4643600 .. 4643514 4643602 .. 0.95 7 ! 34.1 0.0 2.2e-11 6.5e-11 2 95 .. 4673379 4673467 .. 4673378 4673468 .. 0.94 8 ! 59.1 0.2 3.6e-19 1e-18 2 95 .. 4783695 4783787 .. 4783694 4783788 .. 0.98 9 ! 40.2 0.0 2.7e-13 7.9e-13 18 93 .. 4795764 4795838 .. 4795761 4795840 .. 0.94 10 ! 54.5 0.0 9.9e-18 2.8e-17 2 94 .. 4811520 4811611 .. 4811519 4811613 .. 0.98 11 ! 42.1 0.0 6.9e-14 2e-13 18 93 .. 4818058 4818132 .. 4818043 4818134 .. 0.94 12 ! 51.9 0.0 6.2e-17 1.8e-16 1 94 [. 5152635 5152727 .. 5152635 5152729 .. 0.98 13 ! 56.1 0.1 3.1e-18 9e-18 1 94 [. 5159575 5159667 .. 5159575 5159669 .. 0.98 14 ! 21.6 0.2 1.8e-07 5e-07 8 73 .. 5196909 5196972 .. 5196905 5196976 .. 0.95 15 ! 18.8 0.7 1.3e-06 3.8e-06 12 91 .. 5221686 5221762 .. 5221684 5221766 .. 0.88 16 ! 52.5 0.2 3.9e-17 1.1e-16 2 95 .. 5267164 5267258 .. 5267163 5267259 .. 0.93 17 ! 68.8 0.9 3.3e-22 9.4e-22 1 96 [] 5397532 5397631 .. 5397532 5397631 .. 0.97 18 ! 34.6 0.3 1.6e-11 4.6e-11 11 96 .] 5685242 5685351 .. 5685236 5685351 .. 0.91 19 ! 59.1 0.1 3.5e-19 1e-18 1 95 [. 5752183 5752274 .. 5752183 5752275 .. 0.98 20 ! 23.7 0.0 3.9e-08 1.1e-07 25 96 .] 6482174 6482272 .. 6482161 6482272 .. 0.84 21 ! 32.3 0.1 7.8e-11 2.3e-10 12 94 .. 8789135 8789235 .. 8789130 8789237 .. 0.82 Alignments for each domain: == domain 1 score: 47.9 bits; conditional E-value: 1.1e-15 Retrotrans_gag 3 astsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQgtesvreYyerfktladqldevvteeakiek 89 + +sL+g++ +w++ +++r+ sWkd++++f+ +f p ++++++ ++l ++rQ t +v+eY rf++l+ +l++ vt + + ++ Chr1_3 4445139 VISSLTGDSITWWRCSNDREKIY--SWKDFQDKFKVRFRP-STRSSTMDHLLNIRQ-TSTVNEYRGRFEELIVELPH-VTADLLESA 4445220 5679************9987775..***************.666667777******.*******************8.********* PP Retrotrans_gag 90 flaGLn 95 fl+GL+ Chr1_3 4445221 FLNGLR 4445226 *****8 PP == domain 2 score: 33.9 bits; conditional E-value: 2.6e-11 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQgtesvreYy.erfktladqlde.vvteea 85 kl++ sL g+A+swlk+l+a s + +W+ +k af+++f++++++++l+++l++++Qg + rfk++ +++++ +++e + Chr1_3 4531688 KLFPYSLVGEAASWLKQLNAGSLK---TWRSIKIAFLNNFYDDAKSEELRNKLSTFTQGPAEAFKAD*VRFKEYQRDCPHhGFSEVQ 4531771 68999*******************...9******************************544444444559***************** PP Retrotrans_gag 86 kiekflaGL 94 ++ +f +G+ Chr1_3 4531772 LLGTFFRGV 4531780 ********7 PP == domain 3 score: 68.1 bits; conditional E-value: 5.3e-22 Retrotrans_gag 2 lastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQgtesvreYyerfktladqldevvtee.aki 87 la+++Leg+A+ w++s+ ar+++a +sW+d++ +f+++++p+e d++e ++ +l+Qg++svreY ++f++l+ ++ ++++++ a++ Chr1_3 4553748 LAVHFLEGDAHLWWRSVTARRRQADMSWADFVAEFNAKYFPQEALDRMEGRFLELTQGERSVREYDREFNRLLVYAGRGMEDD*AQM 4553834 89************************************************************************************* PP Retrotrans_gag 88 ekflaGLne 96 ++fl+GL++ Chr1_3 4553835 RRFLRGLRP 4553843 *******85 PP == domain 4 score: 58.4 bits; conditional E-value: 5.8e-19 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 +l+++sL ++A++w ksl + si+ s +d+kkaf+++f++++r+++l+++++ ++Q ++es++e +erfk + +q+++ ++++++ Chr1_3 4596361 RLFPFSLGDKAHQWEKSLPQGSIT---SSNDCKKAFLAKFFSNSRTARLRNDISGFTQtNNESFCEAWERFKGYQTQCPHhGFSKAS 4596444 5899********************...9*********************************************************** PP Retrotrans_gag 86 kiekflaGL 94 +++++++G+ Chr1_3 4596445 LLSTLYRGV 4596453 ********7 PP == domain 5 score: 78.8 bits; conditional E-value: 2.5e-25 Retrotrans_gag 2 lastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQgtesvreYyerfktladqlde.vvteeaki 87 l++++Leg+A+ w++s+ ar++++ +sW+d++ +f+++++p+e d++e+++ +l+Qg++svreY ++f++l++++ + +++++a++ Chr1_3 4628349 LVVHFLEGDAHLWWRSVTARRRQEDMSWADFVAEFNAKYFPQEALDRMEARFLELTQGERSVREYDREFNRLLAYAGRgMEDDQAQM 4628435 799***************************************************************************999****** PP Retrotrans_gag 88 ekflaGLne 96 ++fl+GL++ Chr1_3 4628436 RRFLRGLRP 4628444 *******85 PP == domain 6 score: 24.1 bits; conditional E-value: 2.8e-08 Retrotrans_gag 27 esWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteeakiekflaGL 94 ++Wk++k f+++f++++r+++l+ ++++++Q e ++ + rf+++ +++++ ++++ +++ f +G+ Chr1_3 4643531 TTWKEIKVSFLNNFYNDARSEELRMKISTFSQeAAEAFKAAWIRFRRYQRDCPHhGFSDVKLLGVFFRGV 4643600 59*******************************************************************7 PP == domain 7 score: 34.1 bits; conditional E-value: 2.2e-11 Retrotrans_gag 2 lastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQgtesvreYyerfktladqldevvteeakie 88 l+s+s++g+A+sw++ +r + sW +lk+ ++ +f + + + +++ l ++Q t sv+eY++rf+ l +q+ + +++++ Chr1_3 4673379 LVSVSVSGEALSWYNWAISRGDFV--SWLKLKSGLMLRFGNLKLRGPSQS-LFCIKQ-TGSVAEYVQRFEDLSSQVG-GLDDQKLEG 4673460 7899*******************7..***************877777777.******.*******************.6******** PP Retrotrans_gag 89 kflaGLn 95 fl+GL Chr1_3 4673461 IFLNGLT 4673467 *****96 PP == domain 8 score: 59.1 bits; conditional E-value: 3.6e-19 Retrotrans_gag 2 lastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteeak 86 l+ +sL ++A+ wlksl + + sW+d+k af+ +++ ++r++ l+++++s++Q tes++e +erfk + +++++ +++ +++ Chr1_3 4783695 LFIFSLADKAHRWLKSLDLVNLR---SWEDYKAAFLGQYFTQSRISILRNKISSFQQgVTESFHEAWERFKDYYRECPHhGFPRATL 4783778 7999*******************...************************************************************* PP Retrotrans_gag 87 iekflaGLn 95 i++f++G+n Chr1_3 4783779 ISTFYRGVN 4783787 *******98 PP == domain 9 score: 40.2 bits; conditional E-value: 2.7e-13 Retrotrans_gag 18 lvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteeakiekflaG 93 l ++si+ sW+d+kkaf+++ ++++ +++l++e++ ++Q ++e+++e ++rfk++ +q+++ +++++++++++++G Chr1_3 4795764 LPPDSIT---SWDDYKKAFLAKVFSNACTARLRNEISGFNQkNNETFCEAWKRFKSYTTQCPHhGFKKASLLSTLYRG 4795838 5666777...******************************************************************99 PP == domain 10 score: 54.5 bits; conditional E-value: 9.9e-18 Retrotrans_gag 2 lastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteeak 86 l+++sL ++A+ w k+l ++si+ +W+d+kkaf+++ ++++r+++l++e++++ Q es+++ +erfk + +q+++ ++t++++ Chr1_3 4811520 LFPFSLGDKAHIWEKNLPDDSIT---TWDDCKKAFLSNLFSNARTARLRNEISDFLQkAGESFCDAWERFKGYTNQCPHhGFTKASL 4811603 799********************...9************************************************************ PP Retrotrans_gag 87 iekflaGL 94 ++++++G+ Chr1_3 4811604 LSTLYRGV 4811611 *******7 PP == domain 11 score: 42.1 bits; conditional E-value: 6.9e-14 Retrotrans_gag 18 lvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteeakiekflaG 93 l ++si+ sW+d+kkaf+++ ++++r+++l++e++ ++Q ++e+++e ++rfk++ +q+++ +++++++++++++G Chr1_3 4818058 LPPDSIT---SWDDCKKAFLAKVFSNARTARLRNEISGFNQkNNETFCEAWKRFKSYTTQCPHhGFKKASLLSTLYRG 4818132 5666777...******************************************************************99 PP == domain 12 score: 51.9 bits; conditional E-value: 6.2e-17 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 +l+++sL ++A+ w k+l + si+ + +d+kkaf+++f++++r+++l++e++ ++Q ++es++e +erfk + +++++ ++++++ Chr1_3 5152635 RLFPFSLGDKAHLWEKTLPQGSIT---TCDDCKKAFLAKFFSNSRTARLQNEISGFTQkQSESFCEAWERFKGYQTKCPHhGFKQAS 5152718 5899********************...9*********************************************************** PP Retrotrans_gag 86 kiekflaGL 94 +++++++G+ Chr1_3 5152719 LLSTLYRGV 5152727 ********7 PP == domain 13 score: 56.1 bits; conditional E-value: 3.1e-18 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 +l+++sL ++A+ w k+l + si+ +W+d+kkaf+++f++ +r+++l++e++ ++Q ++es+ e +erfk + +++++ ++++++ Chr1_3 5159575 RLFPFSLGDKAHLWEKTLPQGSIT---TWDDCKKAFLAKFFSYSRTARLRNEISGFTQkQSESFYEAWERFKGYQTKCPHhGFKQAS 5159658 5899********************...9*********************************************************** PP Retrotrans_gag 86 kiekflaGL 94 +++++++G+ Chr1_3 5159659 LLSTLYRGV 5159667 ********7 PP == domain 14 score: 21.6 bits; conditional E-value: 1.8e-07 Retrotrans_gag 8 egrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktl 73 +g+A+swlk+l++ s + +Wk++k af+++f++++r+++l+ +++ ++Q e ++ + rf+ l Chr1_3 5196909 SGDASSWLKQLKPGSLT---TWKEIKVAFLNNFYNDARSEELRMKISIFSQeAAEEFKAAWIRFRAL 5196972 79***************...9*******************************************987 PP == domain 15 score: 18.8 bits; conditional E-value: 1.3e-06 Retrotrans_gag 12 kswlkslvarsidasesWkdlkkafrktflpserkdqleeelr.slrQ.gtesvreYyerfktladqldevvteeakiekfl 91 ++w+ sl+++sid ++++l af+k++ +++++e++ sl+Q ++es+r+Y+e+fk + +++ + +ee +i +++ Chr1_3 5221686 LEWFASLEENSID---TFDQLAAAFLKQYSVLIEHRTSETN-L*SLTQlQNESLRSYVEKFKAIKSKIAN-LNEEVAIAALR 5221762 68***********...9**************9999999993.355788899******************5.99999988876 PP == domain 16 score: 52.5 bits; conditional E-value: 3.9e-17 Retrotrans_gag 2 lastsLegrAkswlkslvarsidasesWkdlkkafrktflp.serkdqleeelrslrQgtesvreYyerfktladqlde.vvteeak 86 +++++Leg+A+ w++s+ +r++++ +sW+d++ f+++++p ++ + ++e+++ +l+Qg++svreY ++f++l+ ++ + +++++ak Chr1_3 5267164 MVVHFLEGDAHLWWRSVSDRRRQTDMSWADFVAGFNAKYFP*KALY-RMEARFLELTQGEQSVREYDREFNRLLVYAGRgMEDDQAK 5267249 89**************************************776655.56677***************************999***** PP Retrotrans_gag 87 iekflaGLn 95 ++ f++ L+ Chr1_3 5267250 LRSFMRRLR 5267258 *****9887 PP == domain 17 score: 68.8 bits; conditional E-value: 3.3e-22 Retrotrans_gag 1 klastsLegrAkswlkslvarsida....sesWkdlkkafrktflpserkdqleeelrslrQgtesvreYyerfktladqldevvte 83 k+a+t++ + A+sw+++lv++++++ +e+W++lk++++k+f++s+++++l+++lr+l Qg+++v+eY+++++tl+ ++d +++ Chr1_3 5397532 KIAATEFYDYALSWWDQLVTSRRRTrnypIETWNQLKTVMQKRFVSSYYHHELHQRLRNLVQGSKTVEEYFKEMETLMLRADLQEDG 5397618 5899******************9999********************************************************99999 PP Retrotrans_gag 84 eakiekflaGLne 96 ea +++f+ GLn+ Chr1_3 5397619 EAVMSRFMGGLNR 5397631 ***********95 PP == domain 18 score: 34.6 bits; conditional E-value: 1.6e-11 Retrotrans_gag 11 Akswlkslvarsida........sesWkdlkkafrktflpserkdqleeelrslrQgtesvreYyerfktladqldevvte...... 83 k+wl ++v+++i++ +e W+dl ++fr +lp rk+qle+ +++l+Q++ ++ Yy++ ktl+ ql + t Chr1_3 5685242 VKTWLLNVVSKEIYDsilyyedaVEMWNDLFSRFRVSNLP--RKYQLEQSIHTLKQRNLDLSTYYTKKKTLWVQLAN--TRvltvrk 5685324 589*************************************..**********************************5..44455577 PP Retrotrans_gag 84 ..............eakiekflaGLne 96 + i +fl GLn+ Chr1_3 5685325 cncdhvkelleeaeTSRIIQFLMGLND 5685351 899999999999998999999999986 PP == domain 19 score: 59.1 bits; conditional E-value: 3.5e-19 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqldevvteeak 86 kl+s +L+g+A++w+++l++ sid ++k+l++af k++ + ++d +e++l++l+Q +e +r Y++ fk+++ q++ + ++ a+ Chr1_3 5752183 KLFSENLSGPALTWFTQLEEGSID---NFKQLSTAFIKQYGYFIKSDITEAHLWNLSQsADEPLRTYITAFKEIMVQIP-SLSDSAA 5752265 689*********************...9***************************************************.6****** PP Retrotrans_gag 87 iekflaGLn 95 ++++ +GL+ Chr1_3 5752266 QSALKNGLW 5752274 *******97 PP == domain 20 score: 23.7 bits; conditional E-value: 3.9e-08 Retrotrans_gag 25 a........sesWkdlkkafrktflpserkdqleeelrslrQgtesvreYyerfktladqlde..vvte.................. 83 + W+++kk+f + p r +ql++el+++rQ+ s++ Yy ++++l+d++d + Chr1_3 6482174 SnishkpvaRDLWEHIKKHFCVSNGP--RVQQLRKELSNCRQDGLSIETYYGKLTKLWDNMDAcrP--Rivctcgkcicdclavlet 6482256 333335566899**************..**********************************8551..255566************* PP Retrotrans_gag 84 ...eakiekflaGLne 96 ++k++ fl GL+e Chr1_3 6482257 lreHDKVHDFLMGLDE 6482272 *************975 PP == domain 21 score: 32.3 bits; conditional E-value: 7.8e-11 Retrotrans_gag 12 kswlkslvarsida........sesWkdlkkafrktflpserkdqleeelrslrQgtesvreYyerfktladqlde.vvte...... 83 kswl ++v+++i++ + +Wkdl ++f+k lp r ++l+++++slrQg+ +++Y++r +tl+ +l + + Chr1_3 8789135 KSWLLNSVSKEIYTsilyfptaAAIWKDLYTRFHKSSLP--RLYKLRQQIHSLRQGNLDLSSYHTRTQTLWEELTSlQ--Avprtve 8789217 89*************************************..99999999***********************999641..2223444 PP Retrotrans_gag 84 .......eakiekflaGL 94 + fl GL Chr1_3 8789218 dlliereTNRVIDFLMGL 8789235 455555544444555555 PP >> Transposase_21 Transposase family tnp2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 125.7 0.3 1.5e-39 4.3e-39 6 119 .. 4577752 4577865 .. 4577752 4577869 .. 0.96 2 ! 204.7 0.1 1.1e-63 3.1e-63 31 167 .. 5175819 5175955 .. 5175817 5175956 .. 0.97 3 ! 136.8 0.5 5.8e-43 1.7e-42 1 103 [. 5244660 5244762 .. 5244660 5244762 .. 0.99 4 ! 315.8 0.1 1.2e-97 3.3e-97 2 220 .. 6052041 6052261 .. 6052040 6052265 .. 0.97 Alignments for each domain: == domain 1 score: 125.7 bits; conditional E-value: 1.5e-39 Transposase_21 6 hkeerkkdgklrhpaDgeaWkkfdekypeFakdaRnvrlgLstDGfnPfgklsssyslWpvllvpynlppelcmkee.nillsllip 91 h e+ ++g+ hp++gea k+f + yp+Fa+++Rnv+lgL+tDG+nPfg++ ++yslW v+l+pynlpp++ mk + +++ls+l p Chr1_3 4577752 HVEHSVNNGETCHPSNGEACKHFLKVYPNFASEPRNVYLGLCTDGLNPFGMSGHNYSLWLVILTPYNLPPDMWMK-Q*FMFLSVLFP 4577837 7889999*****************************************************************996.7889******* PP Transposase_21 92 GpkqpgkdidvflepLieeLkeLweeGv 119 Gp++p++++d+f++pLieeLk+Lw ++v Chr1_3 4577838 GPNHPKRSLDIFIQPLIEELKDLWVNSV 4577865 ************************9887 PP == domain 2 score: 204.7 bits; conditional E-value: 1.1e-63 Transposase_21 31 kypeFakdaRnvrlgLstDGfnPfgklsssyslWpvllvpynlppelcmkeenillsllipGpkqpgkdidvflepLieeLkeLwee 117 +yp+Fa++aRn+rlgLstDGfnPf++++ +ys+Wpvllv+ynlpp+lcmk+eni+++llipGp+qpg++idv+lepLie+L++Lw++ Chr1_3 5175819 EYPTFAAEARNMRLGLSTDGFNPFNMKNIQYSCWPVLLVNYNLPPDLCMKKENIMFTLLIPGPQQPGNSIDVYLEPLIEDLNHLWKK 5175905 699************************************************************************************ PP Transposase_21 118 GvetyDa.skkenFtlraallwtinDlpalgnlsgqstkGklacpiCleet 167 G tyDa sk ++Ftl+a+llwti+Dlpa+gnl+g+++kGk+ cpiC ++t Chr1_3 5175906 GEVTYDA*SK-STFTLKAMLLWTISDLPAYGNLVGYKVKGKMGCPICGKNT 5175955 ******9986.68***********************************998 PP == domain 3 score: 136.8 bits; conditional E-value: 5.8e-43 Transposase_21 1 kemrwhkeerkkdgklrhpaDgeaWkkfdekypeFakdaRnvrlgLstDGfnPfgklsssyslWpvllvpynlppelcmkeenills 87 k++rwh +++++dgkl+hp+D+ +W ++++kyp+Fa+++ n+rlgLstDGfnPf++++++ys+Wpvllv+yn+pp+lcmk+eni+l+ Chr1_3 5244660 KDLRWHFSNKSDDGKLHHPVDSVTWDQMNNKYPSFAAKEMNMRLGLSTDGFNPFNMKNTRYSCWPVLLVNYNMPPDLCMKKENIILT 5244746 579************************************************************************************ PP Transposase_21 88 llipGpkqpgkdidvf 103 llipG +q+g++idv+ Chr1_3 5244747 LLIPGLQQSGNSIDVY 5244762 ***************9 PP == domain 4 score: 315.8 bits; conditional E-value: 1.2e-97 Transposase_21 2 emrwhkeerkkdgklrhpaDgeaWkkfdekypeFakdaRnvrlgLstDGfnPfgklsssyslWpvllvpynlppelcmkeenillsl 88 +mrwh+e+++k+++++hp+D+++W+ f+e +p Fa+++Rnv+lgL+tDGfnPfg+ s+++slWpv+l+pynlpp +cm+ e+++l++ Chr1_3 6052041 AMRWHAEHQSKEEEMNHPSDAAEWRYFQELHPMFAEEPRNVYLGLCTDGFNPFGM-SRNHSLWPVILTPYNLPPGMCMNIEYLFLTI 6052126 7****************************************************87.888**************************** PP Transposase_21 89 lipGpkqpgkdidvflepLieeLkeLweeGvetyDaskkenFtlraallwtinDlpalgnlsgqstkGklacpiCleetkskrlkkg 175 l +Gp++p+ ++dvfl+pLieeLkeLw++G+++yD+s ++nF+l+a+llwti+D+pa+++lsg++t+Gkl+cpiC+e+t+s++l +g Chr1_3 6052127 LNSGPNHPRGSLDVFLQPLIEELKELWSTGIDAYDVSLNQNFNLKAVLLWTISDFPAYSMLSGWTTHGKLSCPICMESTNSFYLPNG 6052213 *************************************************************************************** PP Transposase_21 176 kkvvylg.hrrflpakhpfrknkksfdgk..eeeeeapkelsgeevle 220 +k+++++ hrrfl++ hp+rknkk+f++ +++e +p++l+ge+++ Chr1_3 6052214 RKTCWFDcHRRFLSHGHPLRKNKKDFRKGkdASTEYPPESLTGEQIYY 6052261 **************************998667788899******9975 PP >> Transposase_24 Plant transposase (Ptta/En/Spm family) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 43.8 0.0 2.4e-14 6.8e-14 2 51 .. 4379429 4379482 .. 4379428 4379493 .. 0.94 2 ! 36.3 0.2 4.9e-12 1.4e-11 3 121 .. 4582433 4582587 .. 4582431 4582588 .. 0.93 3 ! 44.5 0.0 1.5e-14 4.2e-14 2 51 .. 4691272 4691325 .. 4691271 4691329 .. 0.96 4 ! 47.3 0.0 2e-15 5.8e-15 2 85 .. 4767354 4767466 .. 4767353 4767467 .. 0.90 5 ! 104.4 1.5 4.6e-33 1.3e-32 1 121 [. 5289989 5290144 .. 5289989 5290145 .. 0.91 6 ! 53.0 0.0 3.5e-17 1e-16 1 121 [. 5321037 5321190 .. 5321037 5321198 .. 0.85 7 ! 55.6 0.0 5.4e-18 1.5e-17 50 121 .. 5362530 5362607 .. 5362522 5362609 .. 0.95 8 ! 61.0 0.1 1.2e-19 3.5e-19 54 121 .. 5536659 5536729 .. 5536654 5536730 .. 0.95 9 ! 136.3 1.1 6.7e-43 1.9e-42 2 139 .. 6053923 6054126 .. 6053922 6054127 .. 0.98 Alignments for each domain: == domain 1 score: 43.8 bits; conditional E-value: 2.4e-14 Transposase_24 2 pevwktLvayWdtekakkrseknkkar....nglgihkHtsgsksfaqirkele 51 +++w t++ayWdte+a+krs +++kar ng+g+h H sg+ksf++i++el Chr1_3 4379429 ETLWGTMCAYWDTEAAQKRSRTYSKARlsdrNGIGPHVHYSGPKSFQEIQDELV 4379482 799************************************************986 PP == domain 2 score: 36.3 bits; conditional E-value: 4.9e-12 Transposase_24 3 evwktLvayWdtekakkrseknkkar....nglgihkHtsgsksfaqirkeleeek..............................g 55 +w+ +vayW+ +k k++sek++ + +gl +h H+sgs+s+ +++++l + Chr1_3 4582433 AHWRVMVAYWRIPKIKEKSEKARSSGlfnrDGLNPHSHRSGSRSYPKVQDTLVMLIylyfsyccvlfs*f*ryvyfclifym*eanN 4582519 68*********************9989999********************986555789999999********************** PP Transposase_24 56 ktpdraevfieTHtkkDGtyvdekaeeiaekvkerl.qereseseseasaesdgssr..edkneiflqv 121 ++ ++++v ++ +k DGtyvdeka+ iaek+ e+l + r+ +++ +++++s+ + e+knei++qv Chr1_3 4582520 EDSSFIAVTKKHIKKVDGTYVDEKARVIAEKYDELL*E-RMAQMQLSDGENSTMNPLtiEEKNEIYVQV 4582587 **********************************9997.78888888888888888899*******997 PP == domain 3 score: 44.5 bits; conditional E-value: 1.5e-14 Transposase_24 2 pevwktLvayWdtekakkrseknkkar....nglgihkHtsgsksfaqirkele 51 +++wkt++ayWdte+a++rs+ +++ar nglg+h+++s+sks++qir+el Chr1_3 4691272 KTLWKTMTAYWDTEEAQERSQICSNARmsdrNGLGPHIPFSRSKSYHQIRDELV 4691325 799************************************************985 PP == domain 4 score: 47.3 bits; conditional E-value: 2e-15 Transposase_24 2 pevwktLvayWdtekakkrseknkkar....nglgihkHtsgsksfaqirkeleeek..............gkt............p 58 ++w+++++yWdte+ak++ + + r nglg+hkH sg k f qi++e + + + + p Chr1_3 4767354 NTLWEEMCNYWDTEEAKAKILTTSSTRmsdrNGLGPHKHVSGMKLFLQIKQEVVSSNtvnicfvylynihpK-Klicfvynisgs*P 4767439 589**************************************************99999*********99862.23455555556788 PP Transposase_24 59 draevfieTHtkkDGtyvdekaeeiae 85 +++evf +THtkkDGt+vd+k ee++e Chr1_3 4767440 TIGEVFLRTHTKKDGTFVDRKVEEVHE 4767466 9***********************987 PP == domain 5 score: 104.4 bits; conditional E-value: 4.6e-33 Transposase_24 1 dpevwktLvayWdtekakkrseknkkar....nglgihkHtsgsksfaqirkeleeek............................. 54 dp+vwk+Lv++W+++k++k+s+++++ar +g+gi+kH+sg++s+++++++ + Chr1_3 5289989 DPDVWKGLVQFWQDPKSEKKSNNSRNARyhdpDGKGIYKHRSGQTSYKARARKRV--R*vfslltit*ttml*i*lvylflfqcekt 5290073 79**************************************************542..233334566677778888888888888889 PP Transposase_24 55 .gktpdraevfieTHtkkDGtyvdekaeeiaekvkerlqereseseseasaesdgssr...edkneiflqv 121 ++tpd++e+++eTH+k+DGt++d+k+eei+++v++r++e+es+++s +++es+gs++ ++kn+if++v Chr1_3 5290074 gETTPDFLELLDETHRKADGTFIDGKSEEIYKQVTSRIEEEESHMCSMDNPESTGSGGlsvHAKNKIFTEV 5290144 99******************************************************************986 PP == domain 6 score: 53.0 bits; conditional E-value: 3.5e-17 Transposase_24 1 dpevwktLvayWdtekakkrseknkkar....nglgihkHtsgsks.faqirkele.......eek..................gkt 57 dp+vw +Lv +W+++k+k +s+++++ar +glgi+k +sg++s a+ rk+ +++ ++t Chr1_3 5321037 DPDVWPGLVSFWRDPKSKLKSINSRNARyhdpDGLGIYKYRSGQTS*KARARKRVS*stffflKKLvfqttylyvyvf*cemtgEST 5321123 79******************************************999555555432222222244455567999*********9*** PP Transposase_24 58 pdraevfieTHtkkDGtyvdekaeeiaekvkerl.qereseseseasaesdgssr...edkneiflqv 121 pd+ +++eTH+k+DG+++d+k+eei+++v++++ + +es ++ ++ +es+gs++ ++kn+i+ v Chr1_3 5321124 PDFFLLLDETHRKPDGSFIDRKSEEIYKEVSSKI*E-EESLLCLGDTTESTGSGGlsvQAKNKIYAHV 5321190 ***********************************7.4566777777889999999*********765 PP == domain 7 score: 55.6 bits; conditional E-value: 5.4e-18 Transposase_24 50 leeekgktpdraevfieTHtkkDGtyvdekaeeiaekvkerlqereseseseasaesdgssr......edkneiflqv 121 +ee++g++++ +evfi+THtk+DGtyvd+kae+ia ++++++++++ e+e+ asa+sdg+sr ++++ ifl+v Chr1_3 5362530 QEEKLGRPVHLGEVFIQTHTKSDGTYVDRKAEKIALTYEQNVRDKLFELEAAASAVSDGTSRprdltvDEYTAIFLEV 5362607 46677***************************************************************9******987 PP == domain 8 score: 61.0 bits; conditional E-value: 1.2e-19 Transposase_24 54 kgktpdraevfieTHtkkDGtyvdekaeeiaekvkerlqereseseseasaesdgssr...edkneiflqv 121 ++ktpd++e+++eTH+k+DG+++d+k+eei++kv++r++e+es++ s++++es+gs++ ++kn+if +v Chr1_3 5536659 EKKTPDFLELLDETHRKADGSLIDGKSEEIYKKVTSRIEEEESHMGSGDNPESTGSGGlsvHAKNKIFIEV 5536729 389*****************************************************************886 PP == domain 9 score: 136.3 bits; conditional E-value: 6.7e-43 Transposase_24 2 pevwktLvayWdtekakkrseknkkar....nglgihkHtsgsksfaqirkeleeek.............................g 55 +++wk+++ayWdte+a++rs+ +++ar nglg+h+H+sgsks++qir+el + + g Chr1_3 6053923 KTLWKEMTAYWDTEEAQERSQIYSNARmsdrNGLGPHIHFSGSKSYHQIRDELVSLLsvysfatltrcfnvlfydlfffslqedqlG 6054009 799**************************************************9999999999************************ PP Transposase_24 56 ktpdraevfieTHtkkDGtyvdekaeeiaekvkerlqereseseseasaesdgssr......edkneif.................. 118 kt+++++vfi+THtk+DGtyvd+kae+iae ++++lq r+se+e+easa+sdg+sr e++++if Chr1_3 6054010 KTVSIGDVFIKTHTKPDGTYVDRKAEKIAELYQKNLQLRQSELEAEASAVSDGTSRvreltaEECTTIFlqvtfyvsqfsvfelsfs 6054096 *************************************************************************************** PP Transposase_24 119 .........lqvvgkdkkgrvyglGslqee 139 q++++d++g +yg+Gsl+e+ Chr1_3 6054097 vsnlsfyhtMQSTERDSRGVPYGVGSLKES 6054126 ***************************997 PP >> MULE MULE transposase domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 28.9 0.0 9.9e-10 2.8e-09 2 89 .. 690758 690845 .. 690757 690849 .. 0.89 2 ! 28.9 0.0 1e-09 2.9e-09 1 92 [. 4422225 4422347 .. 4422225 4422348 .. 0.82 3 ! 41.3 0.0 1.3e-13 3.8e-13 2 85 .. 4730048 4730130 .. 4730047 4730130 .. 0.91 4 ! 74.5 0.0 5.7e-24 1.6e-23 1 92 [. 5018435 5018525 .. 5018435 5018526 .. 0.96 5 ! 49.6 0.0 3.4e-16 9.8e-16 13 92 .. 5286510 5286588 .. 5286500 5286589 .. 0.86 6 ! 66.5 0.1 1.8e-21 5.2e-21 1 88 [. 5329771 5329857 .. 5329771 5329865 .. 0.95 7 ! 61.8 0.1 5.3e-20 1.5e-19 1 92 [. 5443822 5443912 .. 5443822 5443913 .. 0.96 8 ! 57.5 0.0 1.1e-18 3.3e-18 2 92 .. 6446263 6446352 .. 6446262 6446353 .. 0.94 9 ! 27.1 0.0 3.4e-09 9.9e-09 8 92 .. 7948714 7948802 .. 7948707 7948803 .. 0.87 10 ! 28.3 0.0 1.5e-09 4.4e-09 5 91 .. 7949638 7949728 .. 7949634 7949730 .. 0.88 11 ! 25.2 0.0 1.3e-08 3.9e-08 5 85 .. 7950738 7950822 .. 7950734 7950823 .. 0.88 12 ! 26.0 0.0 7.7e-09 2.2e-08 8 66 .. 9792900 9792959 .. 9792893 9792966 .. 0.85 Alignments for each domain: == domain 1 score: 28.9 bits; conditional E-value: 9.9e-10 MULE 2 tyktgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkaln.g..pvvvitDgdkglakaikevfpdarhrlClwHil 89 t ++ky g+ll a g d+d+ +fplafa+v++E+ ++w fl l+k l + ++++++ g+ + ++ fp a h +Cl + Chr1_3 690758 TVLKSKYPGTLLLAT---GFDGDGAVFPLAFAIVNEENDDNWHRFLSELRKILDeNmpKLTILSSGERPVVDGVEANFPAAFHGFCLHYLT 690845 556788999999955...*********************************999637666**************************97665 PP == domain 2 score: 28.9 bits; conditional E-value: 1e-09 MULE 1 gtyktgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevf................. 76 gt+ g+y g l+ a+ + da+ ++fp+af++v+s++ e wtwf+ +l++al + ++v+ +D+++++ a Chr1_3 4422225 GTHLRGRYGGCLVAAS---AQDANFQVFPIAFGIVNSKNDEAWTWFMTKLTEALPDdpELVFASDRHNSITPASV--R*hgnt*cisy*ls*sli 4422314 69999*********77...***********************************967778*********998854..333355555677777777 PP MULE 77 .................pdarhrlClwHilrnl 92 p ++h C++H++rn+ Chr1_3 4422315 yhvlkkitsclnimqvyPMSSHAACVVHLKRNI 4422347 777777777777777777777777777777775 PP == domain 3 score: 41.3 bits; conditional E-value: 1.3e-13 MULE 2 tyktgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevfpdarhrlCl 85 t+ + y g+l+ a + d +++ +++a a++++E+ +w+wf+++lk ++++ +v+++D+++ ++k+ +vfp+arh C+ Chr1_3 4730048 TFLKTVYGGKLVFAT---AQDPNHHNYIIASAVIDRENDATWSWFFNKLKTVIQDepGLVFVSDRHQNIIKSTMQVFPNARHGHCV 4730130 677778888888855...999999*****************************967678*************************96 PP == domain 4 score: 74.5 bits; conditional E-value: 5.7e-24 MULE 1 gtyktgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevfpdarhrlClwHilrnl 92 gt+ tgkykg ll+a+ g da+ ++fplafa+v+sE+ eswtwf+++l++ + +++i+D++++++ a k+vfp a+h C++H+ n+ Chr1_3 5018435 GTHLTGKYKGVLLTAN---GQDANFQVFPLAFAVVDSENDESWTWFFQKLERLIAHskSLSIISDRHPSIYIAKKNVFPLAHHGACIVHLAMNV 5018525 79************99...********************************999845699******************************9997 PP == domain 5 score: 49.6 bits; conditional E-value: 3.4e-16 MULE 13 lsakvlvgvdaddegfplafalvesEsaeswtwfletlkkaln.g.pvvvitDgdkglakaikevfpdarhrlClwHilrnl 92 l+ ++ da+ +++pl+fa+v+sE+ +swtwf+ +l++ + +++++D+++++ +k+vf +a+h C+ H+ rn+ Chr1_3 5286510 LT---ASDHDANFQVYPLGFAVVDSENDDSWTWFFTKLERITAdNkTLTILSDRHSSILVTVKRVFRQANHGACIIHLCRNI 5286588 44...33567777888********************999777643689*********************************8 PP == domain 6 score: 66.5 bits; conditional E-value: 1.8e-21 MULE 1 gtyktgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevfpdarhrlClwHi 88 +tykt+ y ++++ ++gv+++ ++++++ al+ +E++es++wf+et++ a+++ +++ tD+++++ + i +vfpd++hrlC++Hi Chr1_3 5329771 TTYKTNEYDRPFAP---FIGVNHHMQTVVFGAALLYDETSESYKWFFETILGAISRkqTKTIFTDQCAAMPNTIVNVFPDTKHRLCVRHI 5329857 59*******99999...99***********************************955799*****************************8 PP == domain 7 score: 61.8 bits; conditional E-value: 5.3e-20 MULE 1 gtyktgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevfpdarhrlClwHilrnl 92 gt+ gky+g ll+a+ da+ ++fp+afa+v++E+ +swtwf+e+l++ + + +++i+D++++++ a + v+ +a+h Cl+H+ rn+ Chr1_3 5443822 GTHLQGKYHGCLLTAS---EHDANFQVFPIAFAIVDNENHNSWTWFMEKLRDIVPDgsDLIIISDRHQSIYHAKSLVYTQAHHVCCLVHLRRNV 5443912 7999**********77...99**99*****************************956999*********************************8 PP == domain 8 score: 57.5 bits; conditional E-value: 1.1e-18 MULE 2 tyktgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevfpdarhrlClwHilrnl 92 t g+ykg ll+ +++ d++ ++fp+af++v+ E+ sw wf+e+l + +++ +++++D++++++k ++ v+p a+h C++H+ rnl Chr1_3 6446263 TQLVGPYKGCLLI---VCAQDGNFQIFPIAFGVVDGETDASWAWFFEKLAEIVQDsdDLLIVSDRHSSIYKGLSVVYPRAHHGACAVHLERNL 6446352 5566899999999...88***********************************967899*********************************8 PP == domain 9 score: 27.1 bits; conditional E-value: 3.4e-09 MULE 8 ykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevf.....pdarhrlClwHilrnl 92 y+ +l++ ++gvda ++ fplafa++++ s++ w+wfl ++++ +++ ++ i+ ++ +++ ++e p+a+hr+ l H++ + Chr1_3 7948714 YQLKLMI---ASGVDAANKYFPLAFAVTKEVSTDIWRWFLTGIREKVTQrkGLCLISSPHPDIIAVVNESGsqwqePWAYHRFSLNHFYSQF 7948802 4444555...66********************************888855799****************777788999*********98876 PP == domain 10 score: 28.3 bits; conditional E-value: 1.5e-09 MULE 5 tgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevf.....pdarhrlClwHilrn 91 +gky+ +l++a+ gvda ++ fplafa++++ s++sw+wf+ ++++ +++ ++ i+ + + ++e p+a+h +Cl H+ Chr1_3 7949638 NGKYQLKLMIAS---GVDAANKFFPLAFAVTKEVSTDSWRWFFTKIREKVTQrkDLCLISSPLRDIVAVVNEPGslwqePWAHHKFCLNHLRSQ 7949728 589988888866...********************************888855799****************555568899*********8765 PP == domain 11 score: 25.2 bits; conditional E-value: 1.3e-08 MULE 5 tgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevf.....pdarhrlCl 85 +gky ++l++++ g dadd fplaf l+++ s++sw+wfl ++++ +++ v+ ++ ++ + + i+e p+++hr+Cl Chr1_3 7950738 NGKYPMKLMISS---GLDADDCFFPLAFPLTKEVSTDSWRWFLTNIREKVTQrkDVCLVSSPHPDIVAVINEPGslwqePWVYHRFCL 7950822 577877888866...********************************888855899****************555568899******6 PP == domain 12 score: 26.0 bits; conditional E-value: 7.7e-09 MULE 8 ykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkaln...g.pvvvitDgdk 66 kg ll+ +vg d +++++p+a+a+v+sE+ae+w wf +++kk+ln g v+++D++k Chr1_3 9792900 VKGVLLT---AVGHDPNNQIYPIAWAVVQSENAENWLWFVQQIKKDLNledGsRFVILSDRSK 9792959 4555555...78***********************************997547889****988 PP >> MuDR MuDR family transposase # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 62.6 0.5 1.9e-20 5.3e-20 1 67 [] 690550 690616 .. 690550 690616 .. 0.98 2 ! 56.2 3.6 1.9e-18 5.5e-18 3 67 .] 1561156 1561220 .. 1561154 1561220 .. 0.97 3 ! 42.7 0.4 3.2e-14 9.1e-14 3 67 .] 4729842 4729909 .. 4729840 4729909 .. 0.94 4 ! 48.0 2.6 7e-16 2e-15 2 67 .] 5018230 5018295 .. 5018229 5018295 .. 0.97 5 ! 48.1 0.8 6.6e-16 1.9e-15 2 67 .] 6446057 6446122 .. 6446056 6446122 .. 0.98 6 ! 42.4 2.3 3.8e-14 1.1e-13 1 67 [] 7948506 7948572 .. 7948506 7948572 .. 0.97 7 ! 47.6 3.5 9e-16 2.6e-15 1 67 [] 7949433 7949499 .. 7949433 7949499 .. 0.97 8 ! 30.8 3.7 1.6e-10 4.7e-10 1 53 [. 7950545 7950597 .. 7950545 7950601 .. 0.95 9 ! 36.1 2.4 3.5e-12 1e-11 6 65 .. 8386805 8386864 .. 8386801 8386865 .. 0.96 10 ! 45.4 0.4 4.6e-15 1.3e-14 2 67 .] 9792690 9792756 .. 9792689 9792756 .. 0.96 Alignments for each domain: == domain 1 score: 62.6 bits; conditional E-value: 1.9e-20 MuDR 1 dpelevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCkkegCpWrvraskdkdsktfki 67 d+e+ vG++F+++ ++++a+k ai rfe++++ksdktr++akC ++gCpWr++++k+++ tf i Chr1_3 690550 DHEMVVGMEFSDAYACRRAIKNAAISLRFEMRTIKSDKTRFTAKCNSKGCPWRIHCAKVSNAPTFTI 690616 5899***********************************************************9987 PP == domain 2 score: 56.2 bits; conditional E-value: 1.9e-18 MuDR 3 elevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCkkegCpWrvraskdkdsktfki 67 +++vGq+F ske++k++++kyai++++++++k+s++++++ +C+++ C+Wr++as +++s+++++ Chr1_3 1561156 DFYVGQEFVSKEKCKDTIEKYAIREKVNIHFKRSERNKIEGVCVQDCCKWRIYASITSRSDKMVV 1561220 79************************************************************987 PP == domain 3 score: 42.7 bits; conditional E-value: 3.2e-14 MuDR 3 elevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCk...kegCpWrvraskdkdsktfki 67 +e+ q+F ske++++ v++ a k +f+ ++ sd++r++++C+ + gC W++r++k+k+s++f++ Chr1_3 4729842 GIELHQEFVSKEAVQDLVNRAANKYCFATATIASDPQRLMLRCRqskTTGCRWYLRCAKVKSSDCFSV 4729909 6899****************************************876666****************97 PP == domain 4 score: 48.0 bits; conditional E-value: 7e-16 MuDR 2 pelevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCkkegCpWrvraskdkdsktfki 67 + +++G+v++sk+++++ ++++aik++f fk+ +++++ ++ +C++e+C+Wr+ +++k ++++i Chr1_3 5018230 KGIYKGRVYASKQDCQISLAIHAIKEQFYFKQSRTKRHYFVITCADENCKWRIMSHEMKTCGYYQI 5018295 5799************************************************************98 PP == domain 5 score: 48.1 bits; conditional E-value: 6.6e-16 MuDR 2 pelevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCkkegCpWrvraskdkdsktfki 67 ++l vG+vFk+++ ++++++ aik++f fk+++s++++++++C++e+CpW++ a+++kds++fki Chr1_3 6446057 ETLFVGSVFKNRKVLQQTMSLQAIKQCFCFKQPQSCPKTLKMVCVDETCPWQLTARVVKDSESFKI 6446122 5799************************************************************98 PP == domain 6 score: 42.4 bits; conditional E-value: 3.8e-14 MuDR 1 dpelevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCkkegCpWrvraskdkdsktfki 67 d++l+vG +Fk+ +e+k+av+++++k + ++ v+++ k+ y+++C +++C+W + a+++k+++ ++i Chr1_3 7948506 DHDLRVGLCFKDGDELKKAVDWCSLKAQQKCVVRETAKDEYIFECIRWKCKWSLGAARMKKHGLVEI 7948572 5799*********************************************************999887 PP == domain 7 score: 47.6 bits; conditional E-value: 9e-16 MuDR 1 dpelevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCkkegCpWrvraskdkdsktfki 67 d+++++G +Fk+++e+k+av+++ i++r+++ v++++k++y+++C++++C+W +ra+++++++ ++i Chr1_3 7949433 DHDMHLGLCFKDRDELKKAVDWWCIRRRRNCIVRETEKEMYTFECVRWKCKWSLRAARMEEHGLVEI 7949499 5899*********************************************************999887 PP == domain 8 score: 30.8 bits; conditional E-value: 1.6e-10 MuDR 1 dpelevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCkkegCpWr 53 d+el+vG +Fk+++e+k+av++++i+ + ++ v + +k+ y++kC +++C+W Chr1_3 7950545 DHELRVGLCFKDRDELKKAVDWCSIRGQQKCVVQEIEKDEYTFKCIRWKCNWS 7950597 589*************************************************7 PP == domain 9 score: 36.1 bits; conditional E-value: 3.5e-12 MuDR 6 vGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCkkegCpWrvraskdkdsktf 65 ++q+F s eefk+ + +y +k +++k k+ +t ++a C++e+C+W++++s+dk+ +++ Chr1_3 8386805 IKQIFHSGEEFKDHLLRYVLKANYDVKLCKWAQTQLMAICRHENCKWKIYCSVDKRLNKW 8386864 789*****************************************************9998 PP == domain 10 score: 45.4 bits; conditional E-value: 4.6e-15 MuDR 2 pelevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCk.kegCpWrvraskdkdsktfki 67 +++ +G++F++ efkea+ ++++k+++++ + +++k+++ +kC + +C+Wrv++s+d+d + f++ Chr1_3 9792690 DKFVIGSTFFTGIEFKEAILEVTLKHGHNVVQDRWEKEKISFKCGmSGKCKWRVYCSYDPDRQLFVV 9792756 6899*****************************************9999**************9987 PP >> Plant_tran Plant transposon protein # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 218.2 0.0 7.8e-68 2.3e-67 22 187 .. 4576922 4577086 .. 4576922 4577088 .. 0.96 Alignments for each domain: == domain 1 score: 218.2 bits; conditional E-value: 7.8e-68 Plant_tran 22 lkigesrgfpgmlgsldcmhwkwkncptawkgqytrgdkksptiileavasydlwiw.haffglpgsnndinvldrsplfadilk.Geapr 110 l ige rgfpgmlgsld mhwkwkncptaw gqy+ g++ sptiilea+a+ydlw ha+fglpg+nndinvl+ s+lf+ l G +p Chr1_3 4576922 LYIGEKRGFPGMLGSLDYMHWKWKNCPTAWAGQYA-GRSGSPTIILEALADYDLW-I*HAYFGLPGTNNDINVLEFSHLFSR-LA*GITPP 4577009 579********************************.*****************96.2669********************87.58999*** PP Plant_tran 111 vkyvvnekqynlayyladGiypkwatlvksirlpqlekkklfaqkqeaarkdverafGvlqarfkivakparlweke 187 ++y++++k+yn++yyladG ypkw+t+v++i++ + +k+k fa++qe++rkdveraf vlq+rf+i++ + wek Chr1_3 4577010 LHYIIQGKEYNMGYYLADGTYPKWSTIVQTIHESRGPKNKYFATQQESCRKDVERAFRVLQSRFAILKGLVHFWEKC 4577086 **************************************************************************985 PP >> DUF659 Protein of unknown function (DUF 659) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 169.7 0.4 3e-53 8.7e-53 1 153 [] 5439524 5439677 .. 5439524 5439677 .. 0.99 Alignments for each domain: == domain 1 score: 169.7 bits; conditional E-value: 3e-53 DUF659 1 PsseeLrgklLqeekkevkkklkelkksWettGcsiladswsdekgrslinllvscekgvvFlksvdasdevkdaeyllellde.vveevGeenv 94 Ps+++Lr+ lL+ee+ ++k ++e +++W+++Gcs+++dswsd+k+rs++nl+++c++g++Fl+s d+ d++++ ey++++++e +++++G ++v Chr1_3 5439524 PSQYQLREPLLKEEVVRMKGLMEEQEDEWRVNGCSVTTDSWSDRKRRSIMNLCINCKEGTMFLSSKDCFDDSHTGEYIFAYVNEyCIKNLGGDHV 5439618 99*********************************************************************************99********** PP DUF659 95 VqvitdnasnykaagklleekyksifwtpcaahcinlmLedisklewvseiiekakkit 153 Vqv+t+na+n+ +a+kll+e +++ifwt+ca+h+inlm+e iskl++ +ei+++ak++t Chr1_3 5439619 VQVVTNNATNNITAAKLLKEVRPTIFWTFCATHTINLMVEGISKLAMSDEIVKMAKAFT 5439677 *******************************************************9875 PP >> Peptidase_C48 Ulp1 protease family, C-terminal catalytic domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 27.8 0.0 1.8e-09 5.3e-09 93 198 .. 5322603 5322707 .. 5322599 5322708 .. 0.86 2 ! 99.0 0.7 3e-31 8.7e-31 41 202 .. 5333266 5333426 .. 5333263 5333428 .. 0.95 Alignments for each domain: == domain 1 score: 27.8 bits; conditional E-value: 1.8e-09 .TTEEEB--EETTTTEE-EE-TT-----....HHHHHHHHHHHHHHHHHTTS------.........EEEEE-------------HHH CS Peptidase_C48 93 dgkHWvlliinlpkktililDSlislhk...vkkenrpidnlkpyLleealnkkskql...dltpfeierltkvpqqknsgDCGiyvl 174 ++kHWv+l inl++k+i++++ + + + ++++++ +++p +l+e++ k + e +++ p + + gDC iy++ Chr1_3 5322603 NKKHWVVLDINLKRKRIYVYNNIPTIVDepeMVQHCMFLRKMIPAMLSEYILK----T*eeLRNGGGEEGHEEGPVNHDPGDCAIYAI 5322686 58*******************9999988899999999************9665....34422346778999***************** PP HHHH-------S---H....HHHH CS Peptidase_C48 175 kfiellaegppqessvtltekdvd 198 k+ie+l+ g++++ l++ +++ Chr1_3 5322687 KYIECLTLGKSFDG---LCDRNMQ 5322707 ***********998...6777665 PP == domain 2 score: 99.0 bits; conditional E-value: 3e-31 H.....................H------TTCCHHCS..-GGG-SEEE--EET.TTEEEB--EETTTTEE-EE-TT-----....HHH CS Peptidase_C48 41 tkkvkdfkknkskkkfkeskk.kdlyngvrrwtrkknkedlfdkdiiyiPinedgkHWvlliinlpkktililDSlislhk...vkke 124 +k++k+f+ +++++k +e + +d++ng+ ++++++nk+++ d+d++y+ + + +HWv+l i+l kk+i i++S+ sl++ + + Chr1_3 5333266 SKDYKQFQPYYRCFKLRE--YyEDQVNGTAQCDAATNKKWFVDVDHLYAFLFVNVNHWVALDIDLTKKRINIYESIPSLTSdt*MAIQ 5333351 789********9955555..558***************************************************************** PP HHHHHHHHHHHHHHTTS------......EEEEE-------------HHHHHHH-------S---H....HHHHHHHH CS Peptidase_C48 125 nrpidnlkpyLleealnkkskqldltpfeierltkvpqqknsgDCGiyvlkfiellaegppqessvtltekdvdsfrk 202 ++++++++p +l+++ ++k+++ ++++ e++r+tkvp++ + g C iy++k+ie+la g++++ l++++++s+r+ Chr1_3 5333352 CMFVMTMIPAMLSSFVPSKQRRRSYSKLEWKRITKVPENLDVGGCAIYSIKYIECLALGKSFDG---LCDENMQSLRT 5333426 ***************************************************************9...99*****9985 PP >> Transposase_23 TNP1/EN/SPM transposase # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 84.1 0.1 3.5e-27 1e-26 2 73 .] 5052299 5052370 .. 5052298 5052370 .. 0.97 2 ! 34.4 0.1 1.2e-11 3.4e-11 2 46 .. 5248731 5248775 .. 5248730 5248776 .. 0.97 Alignments for each domain: == domain 1 score: 84.1 bits; conditional E-value: 3.5e-27 Transposase_23 2 ksqkkckllDwkssddvVaegrvcssdpdelvnriPLGpnaakVlVdvvlvkdAalWRptseietledalgs 73 +sq+kc l+Dw+++d++Vaeg+++ssdpde+vn +LGp+++kVl+d+++v++A+lWRp+ ++e++e+a+g+ Chr1_3 5052299 GSQPKCVLMDWAGTDATVAEGCIISSDPDEIVNGSRLGPTDVKVLIDTAIVQEAYLWRPAVNMEIMEKAVGQ 5052370 689******************************************************************985 PP == domain 2 score: 34.4 bits; conditional E-value: 1.2e-11 Transposase_23 2 ksqkkckllDwkssddvVaegrvcssdpdelvnriPLGpnaakVl 46 k+++kckl+D++++++vVa grv+s dp+ +v+ ++LG aa+V+ Chr1_3 5248731 KENQKCKLMDISGRKQVVAKGRVHSLDPEVKVHYVRLGSDAARVW 5248775 799*****************************************9 PP >> hATC hAT family dimerisation domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 82.2 0.1 1.6e-26 4.6e-26 1 84 [] 6113164 6113248 .. 6113164 6113248 .. 0.99 Alignments for each domain: == domain 1 score: 82.2 bits; conditional E-value: 1.6e-26 hATC 1 eldeyleelpvlrrne..efdvlewwkqnssryPnlsklardvLsipvssaasErsFstlgkvllesrnsleplnveallcieqwl 84 eld yl e p l++ +f+vl +wk+ns r+ ls +a+dvLsip++++asE+sFs++ vl+++r+sl p+n +al+c+++wl Chr1_3 6113164 ELDIYLGE-PTLDMAAfrHFNVLAYWKDNSCRFKELSSMACDVLSIPITTVASESSFSIGSGVLSKYRSSLLPENIQALICTRNWL 6113248 89******.*****99*********************************************************************7 PP >> Transposase_mut Transposase, Mutator family [No individual domains that satisfy reporting thresholds (although complete target did)] >> RVP_2 Retroviral aspartyl protease [No individual domains that satisfy reporting thresholds (although complete target did)] Internal pipeline statistics summary: ------------------------------------- Query sequence(s): 1 (10142557 residues) Target model(s): 46 (7833 nodes) Passed MSV filter: 46 (1); expected 46.0 (1) Passed bias filter: 46 (1); expected 46.0 (1) Passed Vit filter: 46 (1); expected 46.0 (1) Passed Fwd filter: 46 (1); expected 46.0 (1) Initial search space (Z): 46 [actual number of targets] Domain search space (domZ): 16 [number of targets reported over threshold] # CPU time: 2071.12u 1.77s 00:34:32.89 Elapsed: 00:34:34.46 # Mc/sec: 38.30 // Query: Chr1_4 [L=10142557] Description: CHROMOSOME dumped from ADB: Jun/20/09 14:53; last updated: 2009-02-02 Scores for complete sequence (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Model Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 0 2717.2 108.4 2.8e-209 687.1 0.0 10.7 8 ATHILA ATHILA ORF-1 family 0 2505.2 7.4 5.5e-100 325.1 0.1 13.5 12 RVT_2 Reverse transcriptase (RNA-dependent DNA pol 3.7e-263 858.6 8.5 5e-99 321.7 0.1 3.4 3 Transposase_21 Transposase family tnp2 3.8e-263 858.1 38.3 4.4e-53 171.6 0.1 16.9 11 RVT_1 Reverse transcriptase (RNA-dependent DNA pol 1e-257 825.2 84.0 6.7e-24 75.7 0.2 30.7 16 Retrotrans_gag Retrotransposon gag protein 4.9e-202 651.0 11.8 2.9e-28 90.2 0.1 12.1 9 rve Integrase core domain 9.1e-139 451.9 25.4 9.7e-61 196.9 0.2 9.1 3 Peptidase_C48 Ulp1 protease family, C-terminal catalytic d 4.2e-129 413.0 19.5 4.1e-26 82.9 0.1 12.8 8 MULE MULE transposase domain 2.4e-101 327.2 21.2 8.8e-20 62.9 0.0 11.8 7 Transposase_24 Plant transposase (Ptta/En/Spm family) 6.6e-94 299.4 52.6 1e-19 61.7 1.0 9.3 6 MuDR MuDR family transposase 4.6e-83 264.7 4.3 1.6e-27 86.7 0.1 4.6 4 Transposase_23 TNP1/EN/SPM transposase 6.1e-71 229.9 12.7 2.2e-38 123.5 0.0 4.3 3 Plant_tran Plant transposon protein 3.9e-68 217.0 6.2 9.4e-27 84.4 0.1 4.0 3 hATC hAT family dimerisation domain 3.3e-16 51.6 0.1 0.00053 12.2 0.0 8.6 0 RnaseH RNase H 4.8e-11 34.6 0.0 7.4e-07 21.0 0.0 4.9 1 RVP_2 Retroviral aspartyl protease 2.3e-11 34.5 2.6 4.5e-06 17.2 0.0 4.8 0 Transposase_mut Transposase, Mutator family 2.9e-08 25.1 0.1 6e-08 24.1 0.0 1.4 1 DUF659 Protein of unknown function (DUF 659) Domain annotation for each model (and alignments): >> ATHILA ATHILA ORF-1 family # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 623.8 0.1 1.6e-190 4.4e-190 2 457 .. 4634532 4635036 .. 4634531 4635037 .. 0.97 2 ! 534.2 0.0 2.5e-163 6.8e-163 2 378 .. 4637573 4637976 .. 4637572 4637980 .. 0.98 3 ! 687.1 0.0 1e-209 2.8e-209 1 458 [] 4862998 4863450 .. 4862998 4863450 .. 0.99 4 ! 139.9 0.0 1e-43 2.8e-43 180 278 .. 4906387 4906486 .. 4906383 4906488 .. 0.96 5 ! 488.9 0.0 1.4e-149 3.8e-149 8 458 .] 5193740 5194201 .. 5193727 5194201 .. 0.91 6 ! 46.4 0.0 2.3e-15 6.2e-15 174 234 .. 5195221 5195281 .. 5195221 5195283 .. 0.97 7 ! 102.7 0.0 1.9e-32 5.1e-32 288 458 .] 5195282 5195452 .. 5195279 5195452 .. 0.89 8 ! 183.7 0.1 5.3e-57 1.4e-56 2 182 .. 5386419 5386605 .. 5386418 5386610 .. 0.92 Alignments for each domain: == domain 1 score: 623.8 bits; conditional E-value: 1.6e-190 ATHILA 2 rreeiargkrvves...........eeevieEdvev..eyepepvrrrtkelkkkdeltpeeYykllkelefegTryphketlaeLglledvdyl 83 ++eeiargkrv+es e+e++eEd++v e++++p+rrr++++++k+elt+ee+y++l+el+fegTryph++t+++Lg+++dvdyl Chr1_4 4634532 AQEEIARGKRVWESepvaeeevpeiEKEASEEDAQVdeEVSIVPTRRRRNTMRRKKELTIEEHYQYLMELSFEGTRYPHRPTMQALGICRDVDYL 4634626 689********************************999999****************************************************** PP ATHILA 84 fkkakletfmsypyeaykeetveflstlelelyqesedrekeeeg.lGyitFkvkgveyslsikqleeifgFpskkgikpkfdkeeLksLwatia 177 +++akletf+sy+ye+yk+e+++fl+tl+l++y +e+re+e+++ +GyitF+v+g++ys++i+ql+++f+Fp+k+gi+++f+k+eL +Lw+tia Chr1_4 4634627 MEMAKLETFFSYKYEGYKTESCQFLATLKLHFY--AEERERELHKgVGYITFMVFGIQYSVPIRQLDAVFKFPTKYGIRQNFSKDELLDLWLTIA 4634719 *********************************..89999999999************************************************* PP ATHILA 178 sklplnsarsKsnqirspvirylqrsiAnvlfsrestgtvtnselelldqaLkeiLrrtkdgrklkgdlndtslsvvLldhLlsYreyaatikkk 272 ++lp++s+r+Ks+ irspv+ryl+ +iA+++f++++tg+v+++el+lld++L++iL+rt++g +++gd++dtslsvvL+dhL+++reyaa+i+++ Chr1_4 4634720 GPLPYKSSRAKSSLIRSPVLRYLHLCIASAFFPKKTTGHVNEGELKLLDLTLCFILGRTRNGIEMEGDRADTSLSVVLIDHLIGFREYAAGIHQS 4634814 *********************************************************************************************** PP ATHILA 273 .lrGslcvGGvvTpiliavgvplsskglepraidldylkrkeflelkasddayrykfehselkksellLpskevTtieekenIdfkPskeil... 363 ++Gslc+GGv+Tpiliavgvpl+++++++++id++ylkrk++l+++a++d++++kf+hs+l+ s+l+Lp+k++Tti+ ++nIdf+Ps++il Chr1_4 4634815 gYGGSLCAGGVITPILIAVGVPLHTPTHTSTYIDMEYLKRKCYLDRSAPADQLYFKFKHSTLGLSRLALPCKKFTTIRIGNNIDFDPSQSILvnv 4634909 *********************************************************************************************** PP ATHILA 364 ...........sappedeaelteeaeeedv....................de...ededeeaelekfdtsqyhFeehappareskslsevhkkls 424 s+++e+ ae++ee++e+++ ++ e+ de++++++++t+q++Fe++a++++e+++ ++vhkkl+ Chr1_4 4634910 laplqaepsigSESQEEGAEWNEEEAEQEAytrpsnfqhaeygqaefeqvEFs*aEQFDEQEDSCDAATEQFFFEDYAEFDQERDP-GQVHKKLG 4635003 ***********88888889999999998888888888888888876654442333799****************************.******** PP ATHILA 425 klqkwckkqdkllkkllkkikklkkklkssssq 457 +l+ ++k+q+kl+++l+kk++k+k++++ +++q Chr1_4 4635004 MLKGLGKFQRKLFSGLKKKVRKMKRAMDGMAVQ 4635036 ******************************998 PP == domain 2 score: 534.2 bits; conditional E-value: 2.5e-163 ATHILA 2 rreeiargkrvves...........eeevieEdvev..eyepepvrrrtkelkkkdeltpeeYykllkelefegTryphketlaeLglledvdyl 83 ++e iargkrv+es e+e++eEd++v e+ ++p+ rr++++++k+e+t+ee+y++l+el+fegTry h++t+++Lg+++dvd l Chr1_4 4637573 AQEKIARGKRVLESepvaeeevpeiEKEASEEDAQVdeEVPIVPTSRRRNTMRRKKEPTIEEHYQYLMELSFEGTRYLHRSTMQALGICRDVDNL 4637667 5899********************************888889***************************************************** PP ATHILA 84 fkkakletfmsypyeaykeetveflstlelelyqesedrekeeeg.lGyitFkvkgveyslsikqleeifgFpskkgikpkfdkeeLksLwatia 177 +++akletf+sy++e+yk+e+++fl+tl+l++y +e+re+e+++ +GyitF+v+g++ys++i+ql+ +f+Fp+k+gi+++f+k+eL +Lw+tia Chr1_4 4637668 MEMAKLETFFSYKCEGYKTESCQFLATLKLHFY--AEERERELHKgVGYITFMVFGIQYSVPIRQLDVVFKFPTKYGIRQNFSKDELLDLWLTIA 4637760 *********************************..89999999999************************************************* PP ATHILA 178 sklplnsarsKsnqirspvirylqrsiAnvlfsrestgtvtnselelldqaLkeiLrrtkdgrklkgdlndtslsvvLldhLlsYreyaatikkk 272 ++lp++s+r+Ks+ irspv+ryl+ +iA+++f++++tg+v+++el+lld++L++iL+rt++g +++gd++dtslsvvL+dhL+++reyaa+i+++ Chr1_4 4637761 GPLPYKSSRAKSSLIRSPVLRYLHLCIASAFFPKKTTGHVNEGELKLLDLTLCFILGRTRNGIEMEGDRADTSLSVVLIDHLIGFREYAAGIHQS 4637855 *********************************************************************************************** PP ATHILA 273 .lrGslcvGGvvTpiliavgvplsskglepraidldylkrkeflelkasddayrykfehselkksellLpskevTtieekenIdfkPskeil... 363 ++Gslc+GGv+Tpiliavgvpl+++++++++id++ylkrk++l+++a++d++++kf+hs+l+ s+l+Lp+k++Tti+ ++nIdf+P+++il Chr1_4 4637856 dYGGSLCAGGVITPILIAVGVPLHTPTHTATYIDMEYLKRKCYLDRSAQADQLYFKFKHSTLGLSRLALPCKKFTTIRIGNNIDFNPPQSILvnv 4637950 *********************************************************************************************** PP ATHILA 364 ...........sappedeaelteeae 378 s+++e+ ae++ee++ Chr1_4 4637951 laplqaepsigSESQEEGAEWNEEEA 4637976 99999999998888899999998876 PP == domain 3 score: 687.1 bits; conditional E-value: 1e-209 ATHILA 1 trreeiargkrvveseeevieEdveveyepepvrrrtkelkkkdeltpeeYykllkelefegTryphketlaeLglledvdylfkkakletfmsy 95 +r++eiargkr++++++e+i+Edve+ey+pe++rr+tk+l+k+d l++eeY++l+k +ef++Tryp+++ la+Lglledv++l+++++l+t+m+y Chr1_4 4862998 RRKAEIARGKRAMTERYELIDEDVEDEYMPEQTRRATKLLHKPDILPTEEYVRLFKLNEFCSTRYPCSTSLAQLGLLEDVQHLYQSCHLDTLMAY 4863092 589******************************************************************************************** PP ATHILA 96 pyeaykeetveflstlelelyqesedrekeeeglGyitFkvkgveyslsikqleeifgFpskkgikpkfdkeeLksLwatiasklplnsarsKsn 190 py+ay++et++flstl+++lyq+++++e+++eglG+++F+v+g+ey+lsik+le +fgFps++g kpk+++eeLk+Lw+ti+s++pln++rsKsn Chr1_4 4863093 PYVAYEDETIQFLSTLQVKLYQGMTSDELDCEGLGFLRFSVHGHEYRLSIKRLEGLFGFPSGTGSKPKYEREELKDLWITIGSSVPLNASRSKSN 4863187 *********************************************************************************************** PP ATHILA 191 qirspvirylqrsiAnvlfsrestgtvtnselelldqaLkeiLrrtkdgrklkgdlndtslsvvLldhLlsYreyaatikkk.lrGslcvGGvvT 284 qirspviry+qrs+Anvl+sre+tgtvtns++e++++aLk++Lr+tk+g++l+g++n+t+ls++Ll+hL++Y+++a+++++k +rG+lc+GGvvT Chr1_4 4863188 QIRSPVIRYFQRSVANVLYSREITGTVTNSDMEMIAMALKGTLRQTKNGMSLQGKVNNTPLSILLLIHLCGYKSWAVSNNRKrARGALCIGGVVT 4863282 *********************************************************************************************** PP ATHILA 285 piliavgvplsskglepraidldylkrkeflelkasddayrykfehselkksellLpskevTtieekenIdfkPskeil...sappedeaeltee 376 pilia+gvpl s+glepra+d+++l+++efle++++dd++r++fehs+++++++lLps+evT i+e++nIdfkP+ +l +app de++l ee Chr1_4 4863283 PILIACGVPLISAGLEPRAMDIEHLRHCEFLEFAMVDDFHRFRFEHSTDRRANILLPSPEVTLIIEGDNIDFKPEIGRLyyeNAPPLDEDDLLEE 4863377 *********************************************************************************************** PP ATHILA 377 aeeedvdeededeeaelekfdtsqyhFeehappareskslsevhkklsklqkwckkqdkllkkllkkikklkkklkssssqt 458 a++ d++ded+ ++ fdts+yhF+eh+ppar+sksl+e+hk++skl+kwckkqdkl++k++k l++kl++sss+t Chr1_4 4863378 AAS---DGMDEDRAVK---FDTSMYHFAEHVPPARQSKSLTEAHKNNSKLHKWCKKQDKLIAKCFK---LLTDKLSCSSSTT 4863450 ***...9*********...*********************************************97...5789999999875 PP == domain 4 score: 139.9 bits; conditional E-value: 1e-43 ATHILA 180 lplnsarsKsnqirspvirylqrsiAnvlfsrestgtvtnselelldqaLkeiLrrtkdgrklkgdlndtslsvvLldhLlsYreyaatikkk.l 273 l lnsarsKsnqirspviry+q s+Anv++srestgtv+n+++e++d aL++iLrrtk++++l+gdln++++++ Ll+hL++Yr++a + kk + Chr1_4 4906387 LSLNSARSKSNQIRSPVIRYFQCSVANVFYSRESTGTVSNTDMEMIDFALTGILRRTKGKNVLRGDLNNAPPVMPLLIHLCGYRKWALINGKKkV 4906481 6799***********************************************************************************9999999* PP ATHILA 274 rGslc 278 rGs + Chr1_4 4906482 RGSTM 4906486 **965 PP == domain 5 score: 488.9 bits; conditional E-value: 1.4e-149 ATHILA 8 rgkrvves.......eeevieEdvev.....eyepepvrrrtkelkkkdeltpeeYykllkelefegTryphketlaeLglledvdylfkkakle 90 r k +++ + e+++Ed e e+ + ++ +++++ + + Yykllk++ef+gTryph+et+++L +++dvdy+fk+++l+ Chr1_4 5193740 RNKADITQgmkpvgrRLELVDEDSEEdmaspEEDDQTEKGGDDDMESEKCAPRNKYYKLLKRNEFLGTRYPHPETMERLDIYDDVDYMFKQCSLN 5193834 44444444666666699999999888444443333334455567888888999****************************************** PP ATHILA 91 tfmsypyeaykeetveflstlelelyqesedr.ekeeeglGyitFkvkgveyslsikqleeifgFpskkgikpkfdkeeLksLwatiasklplns 184 ++m++p+e+y+eet++f+s++el ly+esed+ + e lGy++F+v++vey+l+i++le ++gFps+k+++++fdk+eL+s+wat++sk + s Chr1_4 5193835 IHMFRPMEGYEEETIQFISSVELLLYGESEDD*IRPDECLGYLEFCVYDVEYRLPIEHLELMYGFPSGKDTSHRFDKRELQSFWATLGSKHGFLS 5193929 **************************9999866555566******************************************************** PP ATHILA 185 arsKsnqirspvirylqrsiAnvlfsrestgtvtnselelldqaLkeiLrrtkdgrklkgdlndtslsvvLldhLlsYreyaatikkklrGslcv 279 +r Ksn irspv+ry++rs+A++lf+re++gt+ +elel+++aL+e+L+ +++g++l+gd+++ts+s+ L++hLlsYr++a+++kk+ G+++v Chr1_4 5193930 SRTKSNEIRSPVVRYFHRSLASALFAREQNGTFVLGELELIETALQELLGLASNGTVLAGDQTNTSVSFDLIEHLLSYRGWAKGLKKS--GRMVV 5194022 ***************************************************************************************9..***** PP ATHILA 280 GGvvTpiliavgvplsskglepraidldylkrkeflelkasddayrykfehselkksellLpskevTtieekenIdfkPskeilsappedeaelt 374 GvvTpil+a++vpl+s+ + pr+id++yl +++++ +++++ +y+y+f+h++ ++s +lLp++++T+i+++ nI+f+P+ e+l dea + Chr1_4 5194023 EGVVTPILRACNVPLHSTLIPPRWIDMQYLINSKSFWSQQKNGLYKYRFNHPTVGESIFLLPNPASTSIRDGGNIEFCPPMENL-YISGDEAVPM 5194116 ************************************************************************************.5567778888 PP ATHILA 375 eeaeeedv..deededeeaelekfdtsqyhFeehappareskslsevhkklsklqkwckkqdkllkkllkkikklkkklkssssqt 458 e+ +++++ +++++ee e+++t+q++Fee+ p + ++s +e+hk+l+ lq wc++qd +l l kk ++l+ k+++ss +t Chr1_4 5194117 EGVNDDEApiHHSNNEEELMDESYATQQFYFEEYSTPRQTKDS-KEIHKRLGFLQSWCNFQDMALISLNKKFNNLQLKISCSSTTT 5194201 88777777224555555555689********************.**************************************9875 PP == domain 6 score: 46.4 bits; conditional E-value: 2.3e-15 ATHILA 174 atiasklplnsarsKsnqirspvirylqrsiAnvlfsrestgtvtnselelldqaLkeiLr 234 at++sk ++s+r Ksn irspv+ry++ s+ ++lf+re+tgt+ n+ele+++ aL+ +L+ Chr1_4 5195221 ATLGSKHGFSSSRTKSNEIRSPVVRYFHWSLVSTLFARERTGTFVNGELEVMERALQDLLG 5195281 5899*******************************************************97 PP == domain 7 score: 102.7 bits; conditional E-value: 1.9e-32 ATHILA 288 iavgvplsskglepraidldylkrkeflelka.sddayrykfehselkksellLpskevTtieekenIdfkPskeilsappedeaelteeaeeed 381 a++vpl+s+ + pr+id+++l +++++ + + ++ +y+y+f+ +++++s lLp++ +T+i +++nI+f+P+ e+l dea +e+ ++++ Chr1_4 5195282 LACNVPLHSTLIPPRWIDMQHLINSKSFWS-Q*KNGLYKYRFDYPTIGQSISLLPNPVSTSISDGRNIEFCPPMENL-YISGDEAVPMEGVNDDE 5195374 59************************9965.555789****************************************.55678888888888888 PP ATHILA 382 vdeededeeae..lekfdtsqyhFeehappareskslsevhkklsklqkwckkqdkllkkllkkikklkkklkssssqt 458 ++ + +d+eae e+++t++++Fee+ p + ++s + +hk+l+ lq wck+qdk+++ l kk ++l+ k+++ss +t Chr1_4 5195375 APIHHSDNEAEpmDESYATQHFYFEEYSAPRQSKES-KVIHKRLGFLQSWCKLQDKAIAALNKKFNNLQLKISCSSTTT 5195452 7666655555522689************99887666.99************************************9875 PP == domain 8 score: 183.7 bits; conditional E-value: 5.3e-57 ATHILA 2 rreeiargkrvveseeevieEdvev.....eyepepvrrrtkelkkkdeltpeeYykllkelefegTryphketlaeLglledvdylfkkaklet 91 ++++ rgk+ v ++ ++++Ed e e+ + ++ l++++ t +eYyk+lk++ef+gTryph+et+++Lg+++dvdy+fk+++l++ Chr1_4 5386419 NKADTTRGKKPVGRRLDLVDEDSEEemvslEEDDQTEKGGGDDLESEKCATRNEYYKVLKRNEFLGTRYPHPETMERLGIYDDVDYMFKQCSLNI 5386513 678999****************99954555444444445667899999*********************************************** PP ATHILA 92 fmsypyeaykeetveflstlelelyqesedrekeeeg.lGyitFkvkgveyslsikqleeifgFpskkgikpkfdkeeLksLwatiasklpl 182 +m+ p+e+ +eet++fls++el ly+esed+e++ + lGy++F+v++vey+l+i++le ++gF+ +k+++++fdk+eL+s+wat++sk + Chr1_4 5386514 HMFWPMEGNEEETIQFLSSVELFLYGESEDDEIRPDRsLGYLEFCVYDVEYRLPIEHLELMYGFQGGKDTSHRFDKRELQSFWATLGSKQGF 5386605 ****************************************************************************************9755 PP >> RVT_2 Reverse transcriptase (RNA-dependent DNA polymerase) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 310.2 0.0 7.5e-96 2e-95 1 245 [. 2775153 2775397 .. 2775153 2775398 .. 0.99 2 ! 314.1 0.0 4.6e-97 1.2e-96 1 245 [. 3026622 3026865 .. 3026622 3026866 .. 0.99 3 ! 26.0 0.0 4.5e-09 1.2e-08 93 221 .. 4114639 4114780 .. 4114638 4114785 .. 0.79 4 ! 287.6 0.0 5.7e-89 1.5e-88 2 245 .. 4249772 4250015 .. 4249771 4250016 .. 0.98 5 ! 112.8 0.0 1.4e-35 3.8e-35 123 244 .. 4392909 4393030 .. 4392907 4393032 .. 0.99 6 ! 75.6 0.2 3.1e-24 8.5e-24 141 242 .. 4595884 4595985 .. 4595884 4595988 .. 0.97 7 ! 311.7 0.2 2.5e-96 6.7e-96 1 245 [. 4618461 4618706 .. 4618461 4618707 .. 0.99 8 ! 295.1 0.0 3.1e-91 8.3e-91 2 244 .. 4645629 4645871 .. 4645628 4645873 .. 0.98 9 ! 35.8 0.3 4.3e-12 1.2e-11 112 158 .. 4938594 4938640 .. 4938588 4938644 .. 0.92 10 ! 94.0 0.3 7.3e-30 2e-29 67 244 .. 5478193 5478377 .. 5478188 5478379 .. 0.90 11 ! 301.5 0.0 3.2e-93 8.8e-93 2 245 .. 5802303 5802546 .. 5802302 5802547 .. 0.99 12 ! 325.1 0.1 2e-100 5.5e-100 2 245 .. 8138868 8139111 .. 8138867 8139112 .. 0.99 Alignments for each domain: == domain 1 score: 310.2 bits; conditional E-value: 7.5e-96 RVT_2 1 nktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngelee 95 n+t++lv+++++++ +g++W+f++K+n dg+i+rykAR++akGf+q++g+dy++tfspv+k ++++++l++a++++++++qlD+++aFL+g+l+e Chr1_4 2775153 NSTYDLVPPKPHQNFVGTRWIFTIKYNPDGSINRYKARFLAKGFHQQHGLDYSNTFSPVIKSTTVQTVLDIAVSRSWDIRQLDINNAFLQGRLTE 2775247 78********************************************************************************************* PP RVT_2 96 evYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLk 190 +vYv+qp+Gf +++++n+vc+Lkk+l+gLkqapraWy++l+ +ll++gf++s a+++lf+++++++ i++l+YVDD+li+gs+++li+++ + L+ Chr1_4 2775248 DVYVAQPPGFINPDRPNYVCHLKKALHGLKQAPRAWYQELRGFLLTCGFTNSVANTSLFIRQHNKDYIYILVYVDDFLITGSNSNLIAQFITCLA 2775342 *********************************************************************************************** PP RVT_2 191 kefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 ++f++kdlg+l+yfL +e +r+++g++l+q++yv +ll+k+km dak+vstp+++ Chr1_4 2775343 NRFSLKDLGQLSYFLEIEATRTKAGLHLMQRRYVLDLLTKTKMLDAKTVSTPMSP 2775397 *****************************************************86 PP == domain 2 score: 314.1 bits; conditional E-value: 4.6e-97 RVT_2 1 nktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngelee 95 n+t+++v+lp+gk+++g kWv+k+K+++dg ierykARlV+ G+ qkeg+dy+etf+pv+k++++rl+l +aa+++++++q+Dv++aFL+g+l+e Chr1_4 3026622 NQTFSIVNLPPGKRALGNKWVYKIKYRSDGAIERYKARLVVLGNCQKEGVDYDETFAPVAKMSTVRLFLGVAAARDWHVHQMDVHNAFLHGDLKE 3026716 79********************************************************************************************* PP RVT_2 96 evYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLk 190 evY+k p+Gf+ ++ ++kvc+L+kslYgLkqapr+W++kls++l+++gf++s +d +lf ++++ ++ vl+YVDDl+i gs ++++++k++L+ Chr1_4 3026717 EVYMKLPQGFQCDD-PSKVCRLHKSLYGLKQAPRCWFSKLSSALKQYGFTQSLSDYSLFSYNNDGIFVHVLVYVDDLIISGSCPDAVAQFKSYLE 3026810 ************95.9******************************************************************************* PP RVT_2 191 kefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 ++f+mkdlg lkyfLg+e++r+++g++lsq+kyv ++++++++ a+p++ ple+ Chr1_4 3026811 SCFHMKDLGLLKYFLGIEVSRNAQGFYLSQRKYVLDIISEMGLLGARPSAFPLEQ 3026865 ****************************************************987 PP == domain 3 score: 26.0 bits; conditional E-value: 4.5e-09 RVT_2 93 leeevYvkqpeGfedkkkenkv.ckLkkslYgLkqap.raWyeklsevllklgfkkseadkclfv.......kkkeeeliivllYVD.Dlliag. 176 ++++vY++qp Gf+d++k+++ + k+ lY Lkqap W++++ ++ ++lg k+s++d++l v + ++++ +++ + l g Chr1_4 4114639 IRKNVYMHQPLGFVDRTKPDHG*VLFKRLLYVLKQAP*A-WNTHFAAYAQHLGLKQSTSDHSLLVclhfvlgQICRTSFYTLVTFCSpHLQWKGd 4114732 5789*****************9999**********9888.*********************9865211112122344444444455414444443 PP RVT_2 177 ...sskelieelkeeLkkefemkdlgelkyfLgleierkeegillsqe 221 ss+ l +++ ++L++efem d g l++fLg++++++++g++l+q+ Chr1_4 4114733 pplSSTILFQRIITSLSSEFEMADQGPLHHFLGITVNKDASGLFLHQQ 4114780 33245667899***********************************97 PP == domain 4 score: 287.6 bits; conditional E-value: 5.7e-89 RVT_2 2 ktwelvelpkgkkviglkWvfklKlnedgeierykAR.lVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngelee 95 +tw+lv+++++++++++kWvf++Kln dg++++ k lVakGf q+eg+dy etfspvv++++irl+l++a++k++ l+qlDv++aFL+gel+e Chr1_4 4249772 HTWSLVPPTDDMNILSSKWVFRTKLNPDGSVDKLK-A*LVAKGFDQEEGVDYLETFSPVVRTTTIRLVLDVATTKSWPLKQLDVSNAFLHGELHE 4249865 79******************************998.4559******************************************************* PP RVT_2 96 evYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLk 190 v++ qp++f+d++k+n+vc+L+k+lYgLkqapraW++++s++ll++gf s++d++lfv ++ +++++llYVDD+l++gs+++l+e+l ++L+ Chr1_4 4249866 PVFMYQPTSFVDSQKPNHVCRLTKALYGLKQAPRAWFDTFSNFLLDFGFVCSKSDPSLFVCLQDGKTLYLLLYVDDILLTGSDQSLLEDLLKALN 4249960 *********************************************************************************************** PP RVT_2 191 kefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 ++f+mkdlg +yfLg++ie ++g++l+q++y++++l++++m+d++p+ tpl + Chr1_4 4249961 NRFSMKDLGPPRYFLGIQIEDYSDGLFLHQTAYASEILHHAGMSDCNPMPTPLPQ 4250015 ****************************************************976 PP == domain 5 score: 112.8 bits; conditional E-value: 1.4e-35 RVT_2 123 gLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLkkefemkdlgelkyfLgleierkeegil 217 gLkqapr+W++kls++l ++gf++s +d +l k+++++i +l+YVDD+++ag++ ++i+++k++L+++f+mkdlg+lkyfLgle++r +g+ Chr1_4 4392909 GLKQAPRCWFSKLSTTLRNMGFTQSYEDYSLLSLKTGDTIIHILIYVDDFIVAGNDLNAINRFKRQLHQCFHMKDLGKLKYFLGLEVSRGPDGFC 4393003 9********************************************************************************************** PP RVT_2 218 lsqekyvkkllkkfkmedakpvstple 244 lsq+ky+ ++++++++ +kp+++p+e Chr1_4 4393004 LSQRKYALDIINEVGLLGCKPSAVPIE 4393030 *************************97 PP == domain 6 score: 75.6 bits; conditional E-value: 3.1e-24 RVT_2 141 klgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLkkefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmed 235 k+gf +s++d +lfv+k+++++ ++llYVDD+++++ss++ +++++++Lk+ef m d+g+l++fLg+++ +++g++l+qe+y+k+++k+++m++ Chr1_4 4595884 KMGFVQSKCDASLFVYKHGQDKAYLLLYVDDIMLTTSSSRFLDSIVDKLKTEFPMLDTGKLSFFLGISVMLDSNGMFLCQENYAKDIIKRAEMQN 4595978 589******************************************************************************************** PP RVT_2 236 akpvstp 242 +kp+ t Chr1_4 4595979 CKPSLTL 4595985 **99875 PP == domain 7 score: 311.7 bits; conditional E-value: 2.5e-96 RVT_2 1 nktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngelee 95 n+tw+l+elp g k+iglkWvfk+K+n+dg+i++y ARlVakG+ qk+g+d++e+f+pv+++e+ ll++l+a++++e+++lDvk aFL+gel+e Chr1_4 4618461 NDTWNLMELPLGIKPIGLKWVFKIKRNSDGSINKYMARLVAKGYVQKYGVDFQEVFAPVARIETRCLLVNLVASNGWEIHHLDVKIAFLHGELKE 4618555 79********************************************************************************************* PP RVT_2 96 evYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeel.iivllYVDDlliagsskelieelkeeL 189 +vYv+qp+Gf++k++e+kv+kL+k+lYgL+qa+raW++kl++vl++l+f+k++++++++ k +e++ ++v++YVDDl+++g+++++i+++k+e+ Chr1_4 4618556 TVYVTQPKGFKEKGHEDKVYKLNKALYGLRQASRAWNNKLNRVLKELKFEKCSKEPSVYRKVMGENItLLVAVYVDDLFVTGTNTKIIDDFKREM 4618650 *****************************************************************99899************************* PP RVT_2 190 kkefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 +++fem+dlg+l y+L +e+ ++eegi+l+q++y+k++l++++m d++ v+tp+e+ Chr1_4 4618651 SSKFEMSDLGKLIYYLEIEVCQHEEGITLTQHRYAKRILEEARMLDCNLVHTPMES 4618706 ******************************************************85 PP == domain 8 score: 295.1 bits; conditional E-value: 3.1e-91 RVT_2 2 ktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesi.rlllalaaekkleleqlDvktaFLngelee 95 +tw+lv+ +++++v+g+kWvf++Kln+dg++++ kARlVakGf q+egidy et+spvv+ +++ + l++a+ ++++++q+Dvk+aFL+g+l+e Chr1_4 4645629 QTWSLVPYTPDMNVLGSKWVFQTKLNADGSLDKLKARLVAKGFDQEEGIDYLETYSPVVRSATV*MV-LHVATVMGWDVKQMDVKNAFLHGDLTE 4645722 8***********************************************************9997775.78999********************** PP RVT_2 96 evYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLk 190 +vY+ qp Gf+dk+k+++vc+L+k+lYgLkqapraW++k+s++ll++gf+ s +d +lf++ k+++li++llYVDD++++g+s++++++l e+L+ Chr1_4 4645723 TVYMLQPAGFVDKNKPTHVCHLHKALYGLKQAPRAWFDKFSNYLLEFGFSCSVKDLSLFIYIKGNDLILLLLYVDDMVLTGNSSATLAKLLEDLN 4645817 *********************************************************************************************** PP RVT_2 191 kefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstple 244 +f+mkdlg+++yfLg++ + +e+g++lsq+ky+++ll+ + med++p+ tpl Chr1_4 4645818 IHFRMKDLGQMHYFLGIQAHFHENGLFLSQQKYAEDLLTIAAMEDCSPMPTPLP 4645871 ***************************************************985 PP == domain 9 score: 35.8 bits; conditional E-value: 4.3e-12 RVT_2 112 nkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkk 158 +++kL++slYgLkq++r+Wy++ls++llk+g+ ++e +c+f+kk+ Chr1_4 4938594 IYMVKLQRSLYGLKQSGRMWYNRLSDYLLKKGYVNNEICPCVFIKKS 4938640 5789****************************************986 PP == domain 10 score: 94.0 bits; conditional E-value: 7.3e-30 RVT_2 67 lllalaaekkleleqlDvktaFLngeleeevYvkqpeGfedkkk......enkvckLkkslYgLk.qapraWye.klsevllklgfkkseadkcl 153 +l++ + +++l++ +Dv t +L+ +l++++Y+k eG+++ ++ ++ + L+ s + p a + ++++llk+g+ ++e +c+ Chr1_4 5478193 YLMSHSGSNNLDIYPMDVVTIYLYWSLDNDIYMKILEGLKVLEAldssksKDIYMWLNYSDHFTN*NNPEACNI*SFKRFLLKKGYVNNEICPCI 5478287 68888999*******************************9886644444344455566665555566777888899******************* PP RVT_2 154 fvkkkeeeliivllYVDDlliagsskelieelkeeLkkefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstple 244 f+kk+ ++++i+ +YVDDl i+g ke i+++ ++Lk+e emkd g++k++Lgl+ie+ ++gi+++q++y+kk+lk+f+m++++p stp+ Chr1_4 5478288 FIKKSLSGFVIIDVYVDDLNIIGILKE-IDDARTHLKEEVEMKDHGKTKFCLGLQIEHFQDGIFVHQSNYTKKILKRFNMDKTNPLSTPMI 5478377 ***********************9887.9************************************************************97 PP == domain 11 score: 301.5 bits; conditional E-value: 3.2e-93 RVT_2 2 ktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleee 96 tw+lv++p++++v+ + W+f++K n+dg+++rykARlVa+G +q+ g+d +etfspv+k ++r +l+la ++++ ++qlDvk+aFL+g+l+e+ Chr1_4 5802303 GTWDLVPRPPNTNVVRSMWLFRHKFNADGTLSRYKARLVANGKSQQIGVDCDETFSPVIKPVTVRSVLHLALARDWPIHQLDVKNAFLHGDLHET 5802397 69********************************************************************************************* PP RVT_2 97 vYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLkk 191 vY++qp+Gf+d++++++vc+LkkslYgLkqapraW++++s++ +k+gf+++++d++lfv++++++l+++llYVDD+l+++ss +l++++ ++L++ Chr1_4 5802398 VYMHQPPGFTDPTRPHHVCHLKKSLYGLKQAPRAWFQRFSQYATKAGFTNTKSDTSLFVYHRGSDLTYLLLYVDDILLTASSPTLLRSILSSLTS 5802492 *********************************************************************************************** PP RVT_2 192 efemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 ef+m+d+g l+yfLg+ ++r+++g++l+q++y+ ++l+++++++++p++tp+++ Chr1_4 5802493 EFSMTDMGLLHYFLGIFVHRDNNGMMLQQRNYAADILHRANISNCNPCATPVDT 5802546 ***************************************************975 PP == domain 12 score: 325.1 bits; conditional E-value: 2e-100 RVT_2 2 ktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleee 96 ktwelvelp g+k+iglkWvfklK+n+dg+i+++kARlVakG+ q++g+d+ee+f+pv+++e+irll++laa++++e+++lDvktaFL+gel+e+ Chr1_4 8138868 KTWELVELPIGAKPIGLKWVFKLKRNSDGSINKHKARLVAKGYVQQYGVDFEEVFAPVARIETIRLLIDLAASHGWEIHHLDVKTAFLHGELKET 8138962 8********************************************************************************************** PP RVT_2 97 vYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLkk 191 vYv q eGfe++++e+kv++L+k+lYgL+qapraW++kl+++l++lg++k++++++++ k+ +++++iv++YVDDl+++g+s eli ++k+e+++ Chr1_4 8138963 VYVCQLEGFEKQGREEKVYRLNKALYGLRQAPRAWNNKLNNILMELGYNKCSKEPSVYRKQVSNHVMIVAVYVDDLFVTGTSLELILKFKKEMSS 8139057 *********************************************************************************************** PP RVT_2 192 efemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 +fem+dlg l+y+Lg+e+ ++++gi+l+q++y+ k+l++++m+d++ v+tp+++ Chr1_4 8139058 KFEMSDLGLLSYYLGIEVIQHSKGITLNQSRYAIKILEETGMKDCNLVHTPMDP 8139111 ****************************************************86 PP >> Transposase_21 Transposase family tnp2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 321.7 0.1 1.9e-99 5e-99 2 223 .. 4823366 4823589 .. 4823365 4823592 .. 0.97 2 ! 235.0 0.2 6e-73 1.6e-72 2 174 .. 5598804 5598976 .. 5598803 5599006 .. 0.92 3 ! 305.7 0.4 1.5e-94 3.9e-94 1 225 [. 6373170 6373394 .. 6373170 6373395 .. 0.99 Alignments for each domain: == domain 1 score: 321.7 bits; conditional E-value: 1.9e-99 Transposase_21 2 emrwhkeerkkdgklrhpaDgeaWkkfdekypeFakdaRnvrlgLstDGfnPfgklsssyslWpvllvpynlppelcmkeenillsl 88 +mrwh+++++ dg+++hp+D++aWk+f++ yp+Fa+++Rnv+lgL+tDGf+Pfg + ++yslWpv+l+pynlpp++cm++e+++ls+ Chr1_4 4823366 KMRWHAQHTTADGEITHPSDAKAWKHFQTVYPDFASECRNVYLGLCTDGFSPFGLSGRQYSLWPVILTPYNLPPDMCMQSEFLFLSI 4823452 7************************************************************************************** PP Transposase_21 89 lipGpkqpgkdidvflepLieeLkeLweeGvetyDaskkenFtlraallwtinDlpalgnlsgqstkGklacpiCleetkskrlkkg 175 l+pGpk p++ +dvfl+pLi+eLk+Lw eGv+t+D s+k+nF++ra+l+wti+D+pa+g+lsg++t+G+l+cp+C+ +t++++lkkg Chr1_4 4823453 LVPGPKYPKRALDVFLQPLIHELKKLWYEGVHTFDYSSKQNFNMRAVLMWTISDFPAYGMLSGWTTHGRLSCPYCMGRTDAFQLKKG 4823539 *************************************************************************************** PP Transposase_21 176 kkvvylg.hrrflpakhpfrknkksfdgk.eeeeeapkelsgeevleelk 223 +k ++++ hrrflp +hp+r+nkk f+++ ++ +p+ +s+++++e+++ Chr1_4 4823540 RKPCWFDsHRRFLPLHHPYRRNKKRFRKNkIVRLPPPSYVSRTDLFEQID 4823589 *****************************667777788899999999986 PP == domain 2 score: 235.0 bits; conditional E-value: 6e-73 Transposase_21 2 emrwhkeerkkdgklrhpaDgeaW.kkfdekypeFakdaRnvrlgLstDGfnPfgklsssyslWpvllvpynlppelcmkeenills 87 +mrwh+++++ dg+++hp++++ k+f++ yp+Fa+++Rnv+lgL+tDGf+Pfg + ++yslWpv+l+pynlpp++cm++e+++l Chr1_4 5598804 KMRWHAQHTTADGEITHPSNAK-A*KHFQTIYPDFANECRNVYLGLCTDGFSPFGLSGRQYSLWPVILTPYNLPPDMCMQSEFLFLR 5598889 7******************986.44479*********************************************************** PP Transposase_21 88 llipGpkqpgkdidvflepLieeLkeLweeGvetyDaskkenFtlraallwtinDlpalgnlsgqstkGklacpiCleetkskrlkk 174 +l+pGpk+p++ +dvfl+pLi+eLk+Lw eGv+t+D s+k+nF++ra+l+wti+D+ a+++l+g++t+G+l+cp+C+ +t++ +++ Chr1_4 5598890 ILVPGPKHPKRALDVFLQPLIHELKKLWYEGVHTFDYSSKQNFNMRAVLMWTISDFLAYEMLTGWTTHGRLSCPYCMGRTNAEICSR 5598976 ********************************************************************************9877655 PP == domain 3 score: 305.7 bits; conditional E-value: 1.5e-94 Transposase_21 1 kemrwhkeerkkdgklrhpaDgeaWkkfdekypeFakdaRnvrlgLstDGfnPfgklsssyslWpvllvpynlppelcmkeenills 87 k++rwh +++++dgk rhp+D+ +W k+ +kypeFa+++Rn+rlgLstDGfnPf++++++ys+Wpvllv+ynlpp++cmk+eni+ls Chr1_4 6373170 KDLRWHYSNKSTDGKHRHPVDSVTWDKMIDKYPEFAAEERNMRLGLSTDGFNPFNMKNTRYSCWPVLLVNYNLPPDQCMKNENIMLS 6373256 579************************************************************************************ PP Transposase_21 88 llipGpkqpgkdidvflepLieeLkeLweeGvetyDaskkenFtlraallwtinDlpalgnlsgqstkGklacpiCleetkskrlkk 174 llipGp+qpg++idv+lep ie+L++Lw++G tyDa++k++Ftl+a+l+wti+D+pa+gnl+g+++kGk+ cp C + t+s++lk Chr1_4 6373257 LLIPGPQQPGNSIDVYLEPFIEDLNHLWKKGELTYDAFSKTTFTLKAMLFWTISDFPAYGNLAGCKVKGKMGCPLCGKGTDSMWLKY 6373343 *************************************************************************************** PP Transposase_21 175 gkkvvylghrrflpakhpfrknkksfdgkeeeeeapkelsgeevleelkkl 225 ++k+v++ hr+ l +h+++++k++fdgk+e+ ++ + l+g+ev ++lk++ Chr1_4 6373344 SRKHVFMCHRKGLAPTHSYKNKKAWFDGKVEHGRKARILTGREVSHNLKNF 6373394 *********************************************999986 PP >> RVT_1 Reverse transcriptase (RNA-dependent DNA polymerase) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 171.6 0.1 1.6e-53 4.4e-53 1 213 [. 4266849 4267107 .. 4266849 4267108 .. 0.97 2 ! 26.5 0.0 4.1e-09 1.1e-08 25 170 .. 4564813 4564981 .. 4564811 4564982 .. 0.92 3 ! 50.4 0.0 1.9e-16 5.1e-16 2 214 .] 4861744 4861904 .. 4861734 4861904 .. 0.95 4 ! 49.6 0.0 3.4e-16 9.2e-16 2 214 .] 4865815 4865975 .. 4865805 4865975 .. 0.95 5 ! 70.6 0.0 1.3e-22 3.5e-22 85 213 .. 4935999 4936160 .. 4935996 4936161 .. 0.95 6 ! 37.3 0.0 1.9e-12 5.2e-12 1 213 [. 5069565 5069724 .. 5069565 5069725 .. 0.91 7 ! 25.3 0.0 9.3e-09 2.5e-08 1 151 [. 5295633 5295737 .. 5295633 5295755 .. 0.92 8 ! 36.0 0.1 5e-12 1.4e-11 1 137 [. 5485911 5486060 .. 5485911 5486064 .. 0.84 9 ! 72.5 0.0 3.3e-23 9e-23 93 211 .. 5671876 5672029 .. 5671871 5672031 .. 0.91 10 ! 135.2 0.0 2.2e-42 6.1e-42 5 202 .. 5856268 5856495 .. 5856264 5856525 .. 0.93 11 ! 169.5 0.1 7e-53 1.9e-52 2 213 .. 6453655 6453912 .. 6453654 6453913 .. 0.96 Alignments for each domain: == domain 1 score: 171.6 bits; conditional E-value: 1.6e-53 RVT_1 1 ipkkg....tgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslht.........ikalnklsgskwllklDlkkaFdsiphdp 82 ipkk+ + +yRpis+++v++k+++k++a+rL+ +l+ + +++ +f + r l++ ++++++ + ++++k+D++kaFds+++++ Chr1_4 4266849 IPKKDeatlMRDYRPISCCNVIYKVISKIIANRLKVMLPTFILQNQSAFVRERLLIEnvllatelvKDYHKDSISPRCAMKIDISKAFDSVQWQF 4266943 899999************************************************************999999*********************** PP RVT_1 83 llkkltafglpqrfirlikkllstrsravylegek.geiyesrglpqGsvlSPllfnlflheldkflrkaf............kprllyvrYaDD 164 ll++l+a+++p++f+++ik ++st++++v+++ge g++ ++rgl+qG+ lSP+lf+++++ l++++ a+ k +l+++++aDD Chr1_4 4266944 LLNTLEALNFPENFCHWIKLCISTATFSVQVNGELaGFFGSKRGLRQGCALSPYLFVICMNVLSHMIDVAAvhrnigyhpkckKLSLTHLCFADD 4267038 **********************************88*********************************99************************ PP RVT_1 165 iligaks.keeleeileeieeflkelglelnpeKtkith...................ksdevkflGyv 213 +++++++ ++ +e ++++++ef+ ++gl+++ eK++++ + +v++lG++ Chr1_4 4267039 LMVFIDGqQRSVEGVINIFKEFAGKSGLHISLEKSTLYLagvselnrnnilsafpfasGQLPVRYLGLP 4267107 *******5555*********************************************99999*****986 PP == domain 2 score: 26.5 bits; conditional E-value: 4.1e-09 RVT_1 25 llakrLeeileplfsepshgfrpgrslht...........ikalnklsgskwllklDlkkaFdsiph.dpllkkltafglpqrfirlikkllstr 107 +l++ L+++l+p +s+++ +f pgr + + +k +++s++ +++k+D++k +d+ d+l ++++fg++ + i +i+ ++++ Chr1_4 4564813 CLVNHLKAHLDPTVSDSQAAFSPGRIINDnvmiaheimhsLKVRKRVSKTYMAVKTDVSKEYDRA-G*DFLETTMRLFGFCNKCIGWIMVAVKSV 4564906 67788***********************9***********777789*****************84.46699************************ PP RVT_1 108 sravylegek.geiyesrglpq.GsvlSPllfnlflheldkflrkaf...........kprllyvrYaDDiligak 170 +++v+++g+ g+i+++rg+ G++lSP+lf l+ + +++ p ++++++ D +l++ak Chr1_4 4564907 HYSVFINGSPqGYITTTRGI-R*GDPLSPYLFILCGVSHLIKVEASSgdirgvhigngAPPITHLQFTDNLLFSAK 4564981 *********64777777776.899***********999999999988999********9**********9999876 PP == domain 3 score: 50.4 bits; conditional E-value: 1.9e-16 RVT_1 2 pkkgtgkyRp.isllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqr 95 p +++++ R+ i d+++l+++++k ++ p + ++++ l++l ++ ++ +lD ++F++ip++p ++ t f++p Chr1_4 4861744 PTRTITGHRMcI-----DYRKLNAASRK---------DHFPLPFIDQM--------LERLANHPYYCFLDGYSGFFQIPIHPNDQEKTTFTCP-- 4861814 444578999988.....***********.........***********........899**********************************.. PP RVT_1 96 firlikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflkelg 190 +++ ++++p+G+ ++P+ f++++ ++++l k ++ +++DD+ ++ s + + l ++ + ++e + Chr1_4 4861815 ----------------------YGTFAYKRMPFGLCNAPATFQRCMTSIFSDLIKE-----MVEVFMDDFSVYGPSFSSCLLNLGRVLTRCEETN 4861882 ......................789******************************6.....7********************************* PP RVT_1 191 lelnpeKtkithksdevkflGyvi 214 l ln eK++++ +e +lG++i Chr1_4 4861883 LVLNWEKCHFM--VKEGIVLGHKI 4861904 ***********..99999999986 PP == domain 4 score: 49.6 bits; conditional E-value: 3.4e-16 RVT_1 2 pkkgtgkyRp.isllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqr 95 p +++++ R+ i d+++l+++++k ++ p + ++++ l++l ++ ++ +lD ++F++ip++p ++ t f++p Chr1_4 4865815 PTRTITGHRMcI-----DYRKLNAASRK---------DHFPLPFIDQM--------LERLANHPYYCFLDGYNGFFQIPIHPNDQEKTTFTCP-- 4865885 444578999988.....***********.........***********........899**********************************.. PP RVT_1 96 firlikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflkelg 190 +++ ++++p+G+ ++P+ f++++ ++++l + ++ +++DD+ ++ s + + l ++ + ++e + Chr1_4 4865886 ----------------------YGTFAYKRMPFGLCNAPATFQRCMTSIFSDLIEE-----MVEVFMDDFSVYGPSFSSCLLNLGRVLTRCEETN 4865953 ......................789*****************************96.....7********************************* PP RVT_1 191 lelnpeKtkithksdevkflGyvi 214 l ln eK++++ +e +lG++i Chr1_4 4865954 LVLNWEKCHFM--VKEGIVLGHKI 4865975 ***********..99999999986 PP == domain 5 score: 70.6 bits; conditional E-value: 1.3e-22 RVT_1 85 kkltafglpqrfirlikkllstrsravylegek.geiyesrglpqGsvlSPllfnlflheldkflrkaf............kprllyvrYaDDil 166 ++l ++lp++f+++i+ ++ +s++v+++ge g ++ rgl+qG+ lSP+lf+++++ l+++l ka+ + +l++++++DD+l Chr1_4 4935999 SPLSTLNLPSKFTKWIELCIFIASFSVQINGELsGLFRNARGLRQGCSLSPYLFVICMNVLSHMLDKAVverqigyhpkyhNLHLTHLCFVDDLL 4936093 6889999*************************77**********************************9************************** PP RVT_1 167 igaks.keeleeileeieeflkelglelnpeKtkith...................ksdevkflGyv 213 +++ + k+ +e l+++ +f++ +gl+++ eK+++++ +v++lG++ Chr1_4 4936094 VFTYGrKSSMEGTLNIFIQFAEISGLQISLEKSTLYMvgvkasdkeailhafpfayGALPVRYLGLP 4936160 *****8888***************************9999999999999999999999999999986 PP == domain 6 score: 37.3 bits; conditional E-value: 1.9e-12 RVT_1 1 ipkkgtgkyRp.isllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllk.kltafglp 93 ++kk+ gk R i d+ l+k++ s p ++++++ ++ + g+ l+++D +++++i ++p+ t+f+++ Chr1_4 5069565 VKKKN-GKDRVcI-----DFTDLNKACPE---------ESFPLPHIDRL--------VESTAGNELLSFMDAFSGYNQIMMNPE-D*EKTSFITD 5069635 57888.9999977.....99999999999.........88888888888........778999999999999999999999996.5556788999 PP RVT_1 94 qrfirlikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflke 188 ++iy+++++p+G++++ +++++++++++ + ++ +Y+DD+l+ + +ke++ ++lee+ +l++ Chr1_4 5069636 ------------------------RGIYCYKVMPFGLKNAGPTYQRLVNKMFNEHLGK-----TMEVYIDDMLVKSLKKEDHVKHLEECFVILNQ 5069701 ........................79*****************************995.....9******************************* PP RVT_1 189 lglelnpeKtkithksdevkflGyv 213 + ++lnp K+++ ++ +flGy Chr1_4 5069702 YQMKLNPAKCTFG--VPSKEFLGYI 5069724 *************..********96 PP == domain 7 score: 25.3 bits; conditional E-value: 9.3e-09 RVT_1 1 ipkkgtgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqr 95 ipkk+ g +R+ vd ++++k++++ p + ++++ l++++++ ++k+Dlk++ ++i+++p +++ taf++ Chr1_4 5295633 IPKKD-GTWRMC----VDSRAINKITVR---------YRFPIPRLDDL--------LDQIGKASLFSKIDLKSGNHQIRIRPGDEWKTAFKTR-- 5295703 8****.*****5....5***********.........99888888888........899******************************9999.. PP RVT_1 96 firlikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrka 151 ++ +e+ ++p+G+ ++P f+++++++++ +++ Chr1_4 5295704 ----------------------EGLFEWLVMPFGLTNAPSTFMRVMNQVLSSGNSW 5295737 ......................789************************9987765 PP == domain 8 score: 36.0 bits; conditional E-value: 5e-12 RVT_1 1 ipkkg....tgkyRpisllsvddkilqkllakrLeeil.............eplfsepshgfrpgrslht.......ikalnklsgs.kwllklD 70 ipkk +++yR+is+++v++k+++k+la+rL+ e l+ e + +k +k+s + ++++k++ Chr1_4 5485911 IPKKEvaaeMKDYRLISCCNVIYKVISKILANRLKCLQprfilqnq*afvkEMLLTE------------NvplateiVKDYHKVSVClRCAMKIN 5485993 799999999**************************9985556666665554333333............1444445533357888888******* PP RVT_1 71 lkkaFdsiphdpllkkltafglpqrfirlikkllstrsravylegekgeiyesrglpqGsvlSPllf 137 + k ds+++d+ll++l a+++ ++fi+ ik +++t++++v+++ge + ++ s++ +vlSPl + Chr1_4 5485994 IYKDVDSVQWDFLLNTLAALNILSKFIHSIKLYITTTTFSVQVNGELDRFFNSSRHYDNDVLSPLTC 5486060 *********************************************9988888888999999999987 PP == domain 9 score: 72.5 bits; conditional E-value: 3.3e-23 RVT_1 93 pqrfirlikkllstrsravylegek.geiyesrglpqGsvlSPllfnlflheldkflrkaf.............kprllyvrYaDDiligaks.k 172 + ++i+ i+ ++s++s++v ++g++ g+i + rg++qG++lSP+lf+l++ +l + l++a +p+ +++++aDD+l+++k k Chr1_4 5671876 SITWINCIMGCVSSVSYSVLINGQSyGHIVPHRGIRQGDPLSPFLFVLCTKALIQILNQAEkmgkvsgiqvngsGPSANHLLFADDTLLICKAsK 5671970 4569********************99*********************************99********************************99 PP RVT_1 173 eeleeileeieeflkelglelnpeKtkith....................ksdevkflG 211 ee+ ei+ ++++ + +g+ +n +K+ it ++ + k+lG Chr1_4 5671971 EECSEIMHCLSQYGHISGQMINLDKSAITFvtkveeetkhyimnr*siqtEGGSRKYLG 5672029 99***************************888877777777777777766666666766 PP == domain 10 score: 135.2 bits; conditional E-value: 2.2e-42 RVT_1 5 g....tgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslht...........ikalnklsgskwllklDlkkaFdsiphdpll 84 +++ Rpisl+sv++k+++k+l++rL++ l+ ++s+++ +f + r + + ++++ +s+ +++k D++kaFd+++++ l Chr1_4 5856268 HhpslMTDLRPISLCSVIYKVISKILVRRLQPLLPLIISDQQSAFVSERLITDnimvahemvhsLNTNASFSSDYMAVKSDMSKAFDRVEWSYLR 5856362 33447899*******************************************99*********996666789************************ PP RVT_1 85 kkltafglpqrfirlikkllstrsravylegek.geiyesrglpqGsvlSPllfnlflheldkflrkaf.............kprllyvrYaDDi 165 +l a+g++ +++++i+ ++s+++++v ++ + g i +++gl+qG++lSP+lf+ +++ l + l++a +p ++++++aDD Chr1_4 5856363 ALLIALGFNLKWVDWIMVCVSSVTYSVLINDQAfGMIVPEKGLRQGDPLSPFLFVMCTEGLTHLLNQAQhlgrltgiqfhneGPMIHHLLFADDS 5856457 ********************************99*********************************99************************** PP RVT_1 166 ligaks.keeleeileeieeflkelglelnpeKtkith 202 l+++k ee + +le++ ++ ++ g+ +np+K++i Chr1_4 5856458 LFICKAnAEESQVLLETLAAYGAATGQVVNPSKSSISF 5856495 ******8888*************************985 PP == domain 11 score: 169.5 bits; conditional E-value: 7e-53 RVT_1 2 pkkg....tgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslht.........ikalnklsgskwllklDlkkaFdsiphdpl 83 pkk + +yRpis+++v +k+++k++a+rL+ l+ + e++ +f + r l++ ++++++ ++++++k+D++kaFds+++++l Chr1_4 6453655 PKKLaakeMRDYRPISCCNVLYKVISKIIANRLKLLLPRFIAENQSAFVKDRLLIEnlllatelvKDYHKDSISARCAIKIDISKAFDSVQWSFL 6453749 6666666689*******************************************************999999************************ PP RVT_1 84 lkkltafglpqrfirlikkllstrsravylegek.geiyesrglpqGsvlSPllfnlflheldkflrkaf............kprllyvrYaDDi 165 ++l a++++++fi++i+ +++t+s++v+++g g+++++rgl+qG+ lSP+lf+++++ l+k+l ka+ + +l+++++aDD+ Chr1_4 6453750 TNTLVAMNFSPTFIHWINLCITTASFSVQVNGDLvGYFQSKRGLRQGCSLSPYLFVICMDVLSKMLDKAAgvrkfgfhpkcqRLGLTHLSFADDL 6453844 *********************************99************************************************************ PP RVT_1 166 ligakskee.leeileeieeflkelglelnpeKtkith...................ksdevkflGyv 213 ++++++k+ +e ile + ef+k++gl+++ eK+++++ + +v++lG++ Chr1_4 6453845 MVLSDGKTRsIEGILEVFDEFCKRSGLRISLEKSTLYMagvspiikqeiaakflfdvGQLPVRYLGLP 6453912 ******6655*********************************************99999****9986 PP >> Retrotrans_gag Retrotransposon gag protein # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 30.1 0.4 4e-10 1.1e-09 2 93 .. 4340185 4340275 .. 4340184 4340277 .. 0.93 2 ! 50.0 0.0 2.6e-16 7.1e-16 1 91 [. 4775027 4775116 .. 4775027 4775117 .. 0.96 3 ! 43.4 0.3 2.9e-14 8e-14 2 95 .. 4904064 4904161 .. 4904063 4904162 .. 0.96 4 ! 54.3 0.0 1.1e-17 3.1e-17 1 94 [. 4904949 4905041 .. 4904949 4905043 .. 0.98 5 ! 24.6 0.0 2.1e-08 5.8e-08 30 94 .. 4956861 4956927 .. 4956850 4956929 .. 0.94 6 ! 25.6 0.0 1.1e-08 2.9e-08 1 69 [. 4970128 4970194 .. 4970128 4970198 .. 0.93 7 ! 61.0 0.0 9.8e-20 2.6e-19 1 94 [. 4973520 4973612 .. 4973520 4973614 .. 0.98 8 ! 58.7 0.0 4.9e-19 1.3e-18 1 94 [. 5117724 5117816 .. 5117724 5117818 .. 0.98 9 ! 59.8 0.0 2.2e-19 6e-19 2 93 .. 5253418 5253508 .. 5253417 5253510 .. 0.98 10 ! 25.5 0.1 1.2e-08 3.2e-08 1 65 [. 5318936 5318998 .. 5318936 5319007 .. 0.91 11 ! 21.0 0.1 2.9e-07 7.8e-07 1 65 [. 5340551 5340613 .. 5340551 5340622 .. 0.91 12 ! 50.9 0.0 1.4e-16 3.8e-16 1 95 [. 5411188 5411279 .. 5411188 5411280 .. 0.97 13 ! 37.5 0.0 2e-12 5.5e-12 17 91 .. 5433306 5433379 .. 5433304 5433380 .. 0.93 14 ! 53.6 0.1 1.9e-17 5.2e-17 1 93 [. 5440628 5440719 .. 5440628 5440721 .. 0.98 15 ! 68.0 0.2 6.2e-22 1.7e-21 2 95 .. 5492327 5492421 .. 5492326 5492422 .. 0.98 16 ! 75.7 0.2 2.5e-24 6.7e-24 1 96 [] 5747277 5747376 .. 5747277 5747376 .. 0.98 Alignments for each domain: == domain 1 score: 30.1 bits; conditional E-value: 4e-10 Retrotrans_gag 2 lastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteeak 86 +s sL g+A+swlk+l+a s + +W+ +k af+++f++++++++l+++l++++Q te + + rfk++ ++ + ++ e ++ Chr1_4 4340185 AFSYSLVGEAASWLKQLKAGSLT---TWRSIKIAFLNNFYDDAKSEELRKKLSTFTQgLTEASKAVWVRFKKYQRDYLHhGFGEVQL 4340268 58999******************...9******************************999999999****99998877779999999 PP Retrotrans_gag 87 iekflaG 93 + ++ +G Chr1_4 4340269 LGTLFRG 4340275 9998888 PP == domain 2 score: 50.0 bits; conditional E-value: 2.6e-16 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 +l+++sL ++ ++w k+l ++si+ sW d+kkaf+++f++++ +++l++e++ ++Q ++e+++e +erfk++ +q+++ +++++ Chr1_4 4775027 RLFPFSLGDKTHHWEKTLPPDSIN---SWVDCKKAFLAKFFSNACTARLRNEISGFTQkNNETFCEALERFKSYTTQCPHhGFKKAL 4775110 5899********************...*****************************************************9999998 PP Retrotrans_gag 86 kiekfl 91 ++++++ Chr1_4 4775111 LLSTLY 4775116 888776 PP == domain 3 score: 43.4 bits; conditional E-value: 2.9e-14 Retrotrans_gag 2 lastsLegrAkswlkslvarsida....sesWkdlkkafrktflpserkdqleeelrslrQgtesvreYyerfktladqldevvte. 83 la+ +L+++A+ w+++ va++++ ++ W d+k ++rk+++p++++++l +++r l Qg++sv+eYy++f+ ++++l +e Chr1_4 4904064 LAVACLTDHALPWWNREVAEKRWLryaqITRWPDMKLELRKRYVPPHYHRELLKQFRALFQGSRSVEEYYKEFELIRSRLE--LEEt 4904148 6899**************99999999*******************************************************..8999 PP Retrotrans_gag 84 .eakiekflaGLn 95 e+ +++f+ GL+ Chr1_4 4904149 *ESHMSQFVDGLQ 4904161 ***********97 PP == domain 4 score: 54.3 bits; conditional E-value: 1.1e-17 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 +l+++sL ++A+ w k+ +si+ +W+d+kkaf+++f++++r+++l +e++ + Q es++e +erfk + +q+++ ++t+++ Chr1_4 4904949 RLFPFSLGDKAHIWEKNQPHDSIT---TWDDCKKAFLSKFFSNARTARLINEISGFLQkAGESFCEAWERFKGYTNQCPHhGFTKAS 4905032 5899********************...9*********************************************************** PP Retrotrans_gag 86 kiekflaGL 94 +++++++G+ Chr1_4 4905033 LLSTLYRGV 4905041 ********7 PP == domain 5 score: 24.6 bits; conditional E-value: 2.1e-08 Retrotrans_gag 30 kdlkkafrktflpserkdqleeelrslr..QgtesvreYyerfktladqlde.vvteeakiekflaGL 94 +d+kkaf+ +f++++r+ +l++e++ ++ Q +es++e +erfk + +++++ +++e+++++++++G+ Chr1_4 4956861 DDCKKAFLVKFFSNSRTVRLRNEISGFT*kQ-NESLCEAWERFKGYQTKCPHhGFKEASLLSTLYRGV 4956927 89*************************7747.**********************************96 PP == domain 6 score: 25.6 bits; conditional E-value: 1.1e-08 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyer 69 +l+++sL ++A++w ksl +si+ +W+d+kkaf+++f++++++++l++e++ ++ es +e +er Chr1_4 4970128 RLFPFSLGDKAHNWEKSLPHDSIT---TWDDCKKAFLAKFFSNAKTARLRNEISGFSPkIGESSCEAWER 4970194 5899********************...9****************************98888888888877 PP == domain 7 score: 61.0 bits; conditional E-value: 9.8e-20 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 +l+++sL ++A +w ksl + si+ sW+d+kkaf+++f+++ r+ +l+++++ ++Q ++e+++e +erfk + +q+++ ++++++ Chr1_4 4973520 RLFPFSLGDKAYQWEKSLPQGSIT---SWNDCKKAFLAKFFSNFRTTRLRNDISGFTQtNKETFCEAWERFKGYQTQCPHhGFSKAS 4973603 5899********************...************************************************************ PP Retrotrans_gag 86 kiekflaGL 94 +++++++G+ Chr1_4 4973604 LLSTLYRGV 4973612 ********7 PP == domain 8 score: 58.7 bits; conditional E-value: 4.9e-19 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 +l+++sL ++++ w k+l+ +si+ +W+d+kkaf+++f++++r+++l++e++ ++Q es++e +erfk + +q+++ ++t+++ Chr1_4 5117724 RLFPFSLGDKSHIWEKNLLHDSIT---TWDDCKKAFLSKFFSNARTARLRNEISGFSQkTGESFCEAWERFKGYTNQCPHhGFTKAS 5117807 5899********************...9*********************************************************** PP Retrotrans_gag 86 kiekflaGL 94 +++++++G+ Chr1_4 5117808 LLSTLYRGV 5117816 ********7 PP == domain 9 score: 59.8 bits; conditional E-value: 2.2e-19 Retrotrans_gag 2 lastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteeak 86 ++++sL ++A++w k+l ++si+ sW+d+kkaf+++f++++r+ +l++e++ ++Q ++e+++e +erfk++ +q+++ +++++++ Chr1_4 5253418 IFPFSLGDKAHHWGKTLPPDSIT---SWDDYKKAFLAKFFSNARTGRLRNEISGFNQkNNETLCETWERFKSYTTQCPHhGFKKASL 5253501 799********************...************************************************************* PP Retrotrans_gag 87 iekflaG 93 ++++++G Chr1_4 5253502 LSTLYRG 5253508 *****99 PP == domain 10 score: 25.5 bits; conditional E-value: 1.2e-08 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvre 65 kl++ sL g+A+swlk+l+a s + +W+ +k af+++f++++++++l+++l++++Q + e ++ Chr1_4 5318936 KLFPYSLAGEAASWLKQLKAGSLK---TWRSIKIAFLNNFYDDAKSEELRNKLSTFTQgPAEAFKA 5318998 68999*******************...9******************************77777665 PP == domain 11 score: 21.0 bits; conditional E-value: 2.9e-07 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvre 65 kl++ sL g+ swlk+l+a s + +W+ +k af+++f++++++++l+++l++++Q + e ++ Chr1_4 5340551 KLFPYSLAGETTSWLKQLKAGSLK---TWRSIKIAFLNNFYDDAKSKELRNKLSTFTQgPAEAFKA 5340613 68999*******************...9******************************77777665 PP == domain 12 score: 50.9 bits; conditional E-value: 1.4e-16 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqldevvteeak 86 kl+s +L+g+A++w+++l++ sid ++k+l++af k++ + ++d +e++l++l+Q + +r Y+ fk+++ q++ + ++ ++ Chr1_4 5411188 KLFSENLSGPALTWFTQLEEGSID---NFKQLSTAFIKQYGYFIKSDITEAHLWNLSQsADDPLRTYIIVFKEIMVQIP-SLSDSTA 5411270 689*********************...9***************************************************.6****** PP Retrotrans_gag 87 iekflaGLn 95 + ++ +GL+ Chr1_4 5411271 QFALKNGLW 5411279 *******97 PP == domain 13 score: 37.5 bits; conditional E-value: 2e-12 Retrotrans_gag 17 slvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteeakiekfl 91 +l +si+ +W+d+kkaf+++f++++r+++l++e++ ++Q es++e +erfk + +q+++ +++++++++ ++ Chr1_4 5433306 NLPHDSIT---TWDDCKKAFLAKFFSNARTARLRNEISGFSQkTGESFCEAWERFKGYTNQCPHhGFKKASLLSILY 5433379 67777777...9***********************************************************998776 PP == domain 14 score: 53.6 bits; conditional E-value: 1.9e-17 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslr.QgtesvreYyerfktladqlde.vvteea 85 +l+++sL ++A++w k+l ++si+ sW+d+kkaf+++f++++r+++l++e++ ++ +++e+++e +erfk++ +q+++ ++++++ Chr1_4 5440628 RLFPFSLGDKAHHWEKTLSPDSIT---SWDDCKKAFLAKFFSNARTARLRNEISGFT*KNNETFCEAWERFKSYTTQCPHhGFKKAS 5440711 5899********************...*******************************99*************************** PP Retrotrans_gag 86 kiekflaG 93 +++++++G Chr1_4 5440712 LLSTLYRG 5440719 ******99 PP == domain 15 score: 68.0 bits; conditional E-value: 6.2e-22 Retrotrans_gag 2 lastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQgtesvreYyerfktladqlde.vvteeaki 87 +a + Leg+A++w+ + +r+ +++e++kd++++f++ ++pse +d+le+++ +l Qg ++vreY e+f++l++++ + ++e+ ++ Chr1_4 5492327 IAIHLLEGDAHNWWLAVDKRKGERVETFKDFEDEFNRMYFPSEAWDRLESNFLDLVQGRRTVREYEEEFNKLRRYVGReLEDEAVQV 5492413 789***************************************************************************99******* PP Retrotrans_gag 88 ekflaGLn 95 ++fl+GL+ Chr1_4 5492414 RRFLRGLR 5492421 *******8 PP == domain 16 score: 75.7 bits; conditional E-value: 2.5e-24 Retrotrans_gag 1 klastsLegrAkswlkslvarsida....sesWkdlkkafrktflpserkdqleeelrslrQgtesvreYyerfktladqldevvte 83 k+a+t++++ A+sw+++lv+++++a +esW+++k+ +rk+f+ps+++++l+++lr+l Qg++sv+eYy++++tl+ ++d ++++ Chr1_4 5747277 KVAPTEFQNYALSWWDQLVTTRRRAgdypIESWTQMKTIMRKRFVPSHYYRELHNRLRNLVQGNKSVEEYYKEMETLMLRADIQEDN 5747363 5799*********************************************************************************** PP Retrotrans_gag 84 eakiekflaGLne 96 ea++++f+ GLn+ Chr1_4 5747364 EAIMSRFMGGLNR 5747376 ***********95 PP >> rve Integrase core domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 84.3 0.1 7.5e-27 2e-26 2 117 .. 2774705 2774818 .. 2774704 2774820 .. 0.98 2 ! 85.2 0.1 4e-27 1.1e-26 5 118 .. 3026207 3026319 .. 3026203 3026321 .. 0.94 3 ! 90.2 0.1 1.1e-28 2.9e-28 3 119 .. 4140771 4140889 .. 4140769 4140890 .. 0.97 4 ! 48.8 0.0 7.4e-16 2e-15 3 106 .. 4576778 4576881 .. 4576777 4576882 .. 0.92 5 ! 38.0 0.0 1.6e-12 4.4e-12 23 114 .. 4598748 4598838 .. 4598730 4598843 .. 0.85 6 ! 72.4 0.0 3.6e-23 9.6e-23 6 118 .. 4862289 4862398 .. 4862285 4862400 .. 0.95 7 ! 58.1 0.0 9.9e-19 2.7e-18 6 111 .. 4979330 4979432 .. 4979326 4979440 .. 0.93 8 ! 72.1 0.0 4.4e-23 1.2e-22 6 118 .. 5118940 5119049 .. 5118936 5119051 .. 0.95 9 ! 64.9 0.0 7.5e-21 2e-20 7 118 .. 5279386 5279494 .. 5279381 5279496 .. 0.92 Alignments for each domain: == domain 1 score: 84.3 bits; conditional E-value: 7.5e-27 rve 2 atrpgelwqiDvtpgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhk 96 t+p+e + iD ++ +i s ++++y l+++d ++r+ +++++k++s +++v+ +++++v++ +++++ +l+sDng ef a++++l+++gi+h Chr1_4 2774705 STQPLEYLYIDLWTSPIVSIDNFKYYLVIVDHYTRYSWFYPIKQKSHVKDVFMTFKALVANKFQRKIIHLYSDNGGEFI--ALRSFLSSNGITHL 2774797 589****************************************************************************..9************* PP rve 97 ftrpyrpqdngkvErfnrtlk 117 +t+p++p+ ng+ Er++r++ Chr1_4 2774798 TTPPHTPEHNGISERKHRHIV 2774818 *******************96 PP == domain 2 score: 85.2 bits; conditional E-value: 4e-27 rve 5 pgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkft 98 ++l+++Dv+ p+r ps+ g +y+lt++dd+sr ++++ ++d+s+++ ++ + ++ver+++ e+k+++sDng+ef +++++ + gi h+++ Chr1_4 3026207 SFQLIHCDVWgPYRAPSYSGARYFLTIVDDYSRGVWVYLMTDKSETQKHLKDFIALVERQFDTEIKIVRSDNGTEFL--CMREYFLHKGIAHETS 3026299 689****************************************877777777777**********************..59************** PP rve 99 rpyrpqdngkvErfnrtlke 118 ++++p++ng vEr++r++ + Chr1_4 3026300 CVGTPHQNGRVERKHRHILN 3026319 *****************976 PP == domain 3 score: 90.2 bits; conditional E-value: 1.1e-28 rve 3 trpgelwqiDvt..pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirh 95 ++++ +++D + p ++ s g+ +y++ +idd+sr++++++lk++++a++ + ++++ve++ ++++k+l++Dng e++++ fe+++ke gi Chr1_4 4140771 KEKLAYIHSDLWgsPHNPASLGNCQYFISFIDDYSRKVWIYFLKKKDEAFEKFVEWKKMVENQSDKKVKKLRTDNGLEYCNHYFEKFCKEEGIVR 4140865 567889********999999**9************************************************************************ PP rve 96 kftrpyrpqdngkvErfnrtlkee 119 + t +y+pq+ng++Er nrt++++ Chr1_4 4140866 HKTVAYTPQQNGVAERLNRTIMDK 4140889 *********************986 PP == domain 4 score: 48.8 bits; conditional E-value: 7.4e-16 rve 3 trpgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrll.sDngseftskafeallkelgirh 95 t+ +el+++D p++++s+ gk+y+++++ddf+r++++++l+ +s a++ +++l +++ + + sD+g ef+++ f +++++ gi h Chr1_4 4576778 THALELIHMDLMgPINVQSRAGKTYIFVMVDDFTRYTWVRFLQEKSNAFESFRVLALQLKNGRA--GIETI*SDHGGEFQNEFFDTFCNDQGIVH 4576870 7899*****************************************9999999999955555444..5677799********************** PP rve 96 kftrpyrpqdn 106 ++++p++pq++ Chr1_4 4576871 QYSAPRTPQQQ 4576881 *********96 PP == domain 5 score: 38.0 bits; conditional E-value: 1.6e-12 rve 23 g.kaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkftrpyrpqdngkvErfnr 114 + + ll+++d +++i a a ++ + ++v d+l++ + r+g p ++++Dng+++ts +++a++ +++ir+++++p+ pq ng +E + Chr1_4 4598748 KrLKNLLVLTDYSTKWIEAKAFQQV-TEKQVEDFLWENIVCRHGI-PYEIVTDNGTNLTSGKIKAFCDKWKIRLTTSTPRYPQGNGHAEAATK 4598838 136789*******************.8888888888888888887.*******************************************8765 PP == domain 6 score: 72.4 bits; conditional E-value: 3.6e-23 rve 6 gelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkftr 99 +++w iD+ p++ +s+g ++y+l+a+d s+++ a+a ++ +a++v++l+++++ r+gv p++++sD g+ f +k fe+llk++g++hk ++ Chr1_4 4862289 FDVWGIDFMgPFP-SSYG-NKYILVAVDYVSKWVEAIASPTN-DAKVVLKLFKTIIFPRFGV-PRVVISDGGKHFINKVFENLLKKHGVKHKVAT 4862379 789******9999.6666.8**********************.*******************.******************************** PP rve 100 pyrpqdngkvErfnrtlke 118 py+pq+ g+vE +nr +k+ Chr1_4 4862380 PYNPQTSGQVEISNREIKT 4862398 ****************997 PP == domain 7 score: 58.1 bits; conditional E-value: 9.9e-19 rve 6 gelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkftr 99 +++w iD+ ++ +s+g ++y+l+a+d s+++ a+a ++ +a +v++l+++++ r+gv p++++sD g+ f +k fe+llk++g++ k ++ Chr1_4 4979330 FDVWGIDFMgLFP-SSYG-NKYILVAVDYVSKWVEAIASPTN-DARVVLKLFKTIIFPRFGV-PRVVISDGGKHFINKVFENLLKKHGVKDKVAT 4979420 789******7777.6677.9**********************.*******************.******************************** PP rve 100 pyrpqdngkvEr 111 py+pq+ g+vE Chr1_4 4979421 PYHPQTSGQVEI 4979432 ***********5 PP == domain 8 score: 72.1 bits; conditional E-value: 4.4e-23 rve 6 gelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkftr 99 +++w iD+ p++ +s+g ++y+l+a+d s+++ a++ ++ +a++v++l+++++ r+gv p++++sD g+ f +k fe+llk++g++hk ++ Chr1_4 5118940 FDVWGIDFMgPFP-SSYG-NKYILVAVDYVSKWVEAIVSPTN-DAKVVLKLFKTIIFPRFGV-PRVVISDGGKHFINKVFENLLKKHGVKHKVAT 5119030 789******9999.6666.8**********************.*******************.******************************** PP rve 100 pyrpqdngkvErfnrtlke 118 py+pq+ g+vE +nr +k+ Chr1_4 5119031 PYHPQTSGQVEISNREIKT 5119049 ****************997 PP == domain 9 score: 64.9 bits; conditional E-value: 7.5e-21 rve 7 elwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkftrp 100 ++w i + ++ +s+g ++y+l+++d s+++ a+a ++ a+++++l+++++ r+gv p++++sD g+ f +k fe+llk++g++hk ++p Chr1_4 5279386 HVWGINFMgSFP-SSYG-NKYILVVVDYISKWVEAIASPTN-NAKVALKLFKTIIFPRFGV-PRVVISDGGKHFINKVFENLLKKHGVKHKVATP 5279476 567777775556.5555.9**********************.*******************.********************************* PP rve 101 yrpqdngkvErfnrtlke 118 y+pq++g+vE +nr +k+ Chr1_4 5279477 YHPQTRGQVEISNREIKA 5279494 ***************997 PP >> Peptidase_C48 Ulp1 protease family, C-terminal catalytic domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 156.6 0.2 7.2e-49 2e-48 7 216 .] 5864544 5864750 .. 5864544 5864750 .. 0.97 2 ! 60.0 0.2 2.7e-19 7.3e-19 7 163 .. 6176810 6176956 .. 6176810 6176958 .. 0.91 3 ! 196.9 0.2 3.6e-61 9.7e-61 1 214 [. 7138888 7139099 .. 7138888 7139101 .. 0.98 Alignments for each domain: == domain 1 score: 156.6 bits; conditional E-value: 7.2e-49 HHHHHHHH.......HHHTSTTEEE--THHHHHHH.....................H------TTCCHHCS..-GGG-SEEE--EET. CS Peptidase_C48 7 vidfylkllaerlesseekaervhflntffvskLtkkvkdfkknkskkkfkeskk.kdlyngvrrwtrkknkedlfdkdiiyiPined 93 ++++++ ll++rl+ ++ +++r++f++++f+s+L+ k+++f+++k k+++++s++ +++++g ++e+++d+d+iy+P+ ++ Chr1_4 5864544 HMEVLVSLLSRRLR-TTLENHRSAFVDPWFTSHLQAKFRAFNAAKVKSRVRWSEDmQRFIKGS-------KTEWFKDIDTIYAPMIWN 5864623 57788889999988.9**************************************988888888.......678*************** PP TTEEEB--EETTTTEE-EE-TT-----....HHHHHHHHHHHHHHHHHTTS------.......EEEEE-------------HHHHHH CS Peptidase_C48 94 gkHWvlliinlpkktililDSlislhk...vkkenrpidnlkpyLleealnkkskql.dltpfeierltkvpqqknsgDCGiyvlkfi 177 ++HWv+l inl ++++ilD++ +l+ vk++++p+ nl+p+L++++++++ +q+ l+pf + r+++++++ sgDCG++++kf+ Chr1_4 5864624 DCHWVGLSINLGIWSVEILDPNTDLYDdakVKRCIEPVVNLLPHLIQRYCTPEFSQNhGLQPFGWSRIDGIYKNLWSGDCGPVAMKFL 5864711 *******************************************************999****************************** PP H-------S---H....HHHHHHHHHHH...HHHHTTTT CS Peptidase_C48 178 ellaegppqessvtltekdvdsfrkklaldiyeilrsrl 216 e++a ++ ++++++t+k+vd+fr+++a+diy+++ ++l Chr1_4 5864712 EIQASDKLPDKKAEITDKHVDAFRRQYAMDIYKQCVCSL 5864750 ***********999*********************9975 PP == domain 2 score: 60.0 bits; conditional E-value: 2.7e-19 HHHHHHHH.........HHHTSTTEEE--THHHHHHH....................H------TTCCHHCS..-GGG-SEEE--EET CS Peptidase_C48 7 vidfylkllaerles..seekaervhflntffvskLtkkvkdfkknkskkkfkeskkkdlyngvrrwtrkknkedlfdkdiiyiPine 92 ++d+ l+l+++r es + k++ v+f+ + f++ + +++++f +nk+ ++f+ ++ ++ + ++++i++P+++ Chr1_4 6176810 HVDAALELMKTRKESnpELFKNKLVVFVGSSFLNVIDESYMEFLDNKEGFQFQSEEI-------SKLIIE------EETKCILAPFCI 6176884 578999*********9999****************************9988877774.......333444......3789******** PP .TTEEEB--EETTTTEE-EE-TT-----....HHHHHHHHHHHHHHHHHTTS------......EEEEE----- CS Peptidase_C48 93 dgkHWvlliinlpkktililDSlislhk...vkkenrpidnlkpyLleealnkkskqldltpfeierltkvpqq 163 +gk+Wv+l i+l++kt++i+++ +s+ + +kk++ ++ +py+++++l+k+++++ +pf+i++lt++pq Chr1_4 6176885 KGKCWVALLIHLEQKTVCIWECAASYLTeevKKKYVVAYSIAMPYIVQNILKKEDMDV--SPFSIKVLTTFPQV 6176956 ******************************9999******************986666..*************7 PP == domain 3 score: 196.9 bits; conditional E-value: 3.6e-61 ----HHHHHHHHHH.......HHHTSTTEEE--THHHHHHH.....................H------TTCCHHCS..-GGG-SEEE CS Peptidase_C48 1 ewlndtvidfylkllaerlesseekaervhflntffvskLtkkvkdfkknkskkkfkeskk.kdlyngvrrwtrkknkedlfdkdiiy 87 ++l+++++++++k+ +++ a+r+ +l+ +++++Ltk+v dfkk+ +k+ fk++k +d++ngv+ ++++ n+++++d+d++y Chr1_4 7138888 QHLEMMAMLMWHKNG------EQMIANRCIVLDMMLTHLLTKRVGDFKKCINKNGFKWGKLlSDIANGVHINREP-NMKWMKDVDVVY 7138968 69999*********9......9*****************************************************.7*********** PP --EET.TTEEEB--EETTTTEE-EE-TT-----....HHHHHHHHHHHHHHHHHTTS------.......EEEEE------------- CS Peptidase_C48 88 iPinedgkHWvlliinlpkktililDSlislhk...vkkenrpidnlkpyLleealnkkskql.dltpfeierltkvpqqknsgDCGi 171 +P+n+++ HWv+l inl+++ i+++D lis+++ vk++++pi++++pyL++ ++++ ++ +++pfe++r+ +v+q++++gDCG+ Chr1_4 7138969 APMNWKSEHWVALGINLNERLITVYDALISYTResaVKARMTPICEMMPYLVRAMCQDVLISPySVEPFEYVRCPTVAQNPTTGDCGP 7139056 ***********************************************************9999************************* PP HHHHHHH-------S---H....HHHHHHHHHHH...HHHHTT CS Peptidase_C48 172 yvlkfiellaegppqessvtltekdvdsfrkklaldiyeilrs 214 y++kf+ella g+p+++ +t++e+d+ ++r+k+++diye+ ++ Chr1_4 7139057 YTMKFLELLAFGHPFSDLATIREADMVFYRQKYSVDIYEHGKR 7139099 *****************999*******************9875 PP >> MULE MULE transposase domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 37.6 0.0 2e-12 5.5e-12 6 91 .. 3981537 3981626 .. 3981532 3981628 .. 0.90 2 ! 33.7 0.0 3.2e-11 8.7e-11 17 84 .. 4808536 4808609 .. 4808527 4808611 .. 0.84 3 ! 82.9 0.1 1.5e-26 4.1e-26 1 92 [. 5488235 5488325 .. 5488235 5488326 .. 0.97 4 ! 25.9 0.0 8.9e-09 2.4e-08 20 81 .. 5570825 5570888 .. 5570812 5570889 .. 0.86 5 ! 39.2 0.0 6.3e-13 1.7e-12 1 92 [. 5915105 5915236 .. 5915105 5915237 .. 0.94 6 ! 49.4 0.0 4.2e-16 1.1e-15 3 92 .. 6912960 6913048 .. 6912958 6913049 .. 0.88 7 ! 58.8 0.0 4.9e-19 1.3e-18 7 92 .. 7210318 7210402 .. 7210313 7210403 .. 0.90 8 ! 38.6 0.0 9.5e-13 2.6e-12 3 76 .. 7688831 7688903 .. 7688829 7688913 .. 0.92 Alignments for each domain: == domain 1 score: 37.6 bits; conditional E-value: 2e-12 MULE 6 gkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevf.....pdarhrlClwHilrn 91 gkyk++l++a+ + da ++ fplafa++++ s++sw+wfl ++++ +++ ++ i+ d+ + + i+e p+a+hr+Cl+H+ + Chr1_4 3981537 GKYKMKLMIAS---AFDATNQYFPLAFAVTKEVSVDSWRWFLTRIREKVTQrqGICLISSPDPDILAVINEPGsqwkePWAYHRFCLYHLCSK 3981626 89999999977...999999**************************888855899****************666788899*********9776 PP == domain 2 score: 33.7 bits; conditional E-value: 3.2e-11 MULE 17 vlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevfpdar....hrlC 84 +++ d++ +++++afa+v++E+ sw+wf+++l ++ + + +i+D +++++kai v+p+++ h C Chr1_4 4808536 TVTTQDGNFQIYLIAFAVVDTENDASWEWFFRQLSSVIPDddSLAIISDKHQSIKKAIMIVYPKSSresvHTTC 4808609 366788888999**************************956899******************995423336666 PP == domain 3 score: 82.9 bits; conditional E-value: 1.5e-26 MULE 1 gtyktgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevfpdarhrlClwHilrnl 92 +tykt+ y ++++ +v v++++++++++ al+ +E++es++w++et++ a++g p++++tD+++++a+ai +vfpd++hrlC+wHi++n+ Chr1_4 5488235 TTYKTNEYDRPFAP---FVVVNHHKQTVVFGAALLYEETSESYKWLFETFLGAMSGkqPKTILTDQCAAMANAIVKVFPDTKHRLCVWHIYQNA 5488325 59*******99999...99************************************669**********************************97 PP == domain 4 score: 25.9 bits; conditional E-value: 8.9e-09 MULE 20 gvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevfpdarh 81 + d ++ +++af++++ E+ sw wfle+lk ++ + ++v++ D++++l+k i++v+ a+h Chr1_4 5570825 AQDPNHYHYIIAFGVLKGENDASWDWFLEKLKTVVPDtsELVFMNDRNASLIKGIRNVYTAAHH 5570888 5667666779*************************967899******************99998 PP == domain 5 score: 39.2 bits; conditional E-value: 6.3e-13 MULE 1 gtyktgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevf................. 76 gt ++g+y g l s ++ d++ ++fplaf++v+sE+ + ++wf+++l + +++i+D++ +++ +++v Chr1_4 5915105 GTSMKGRYGGCLIS---ACCQDGNFQIFPLAFGIVNSENDSAYEWFFQRLSIIAPDnpDLMFISDRHESIYTGLSKVRhnhpshvssysihisiy 5915196 68899*********...55********************************999855778*********************************** PP MULE 77 ........................pdarhrlClwHilrnl 92 +a+h C +H++rn+ Chr1_4 5915197 licq*agsilig**mislillqvyTQANHAACTVHLWRNI 5915236 ********************99999999*********998 PP == domain 6 score: 49.4 bits; conditional E-value: 4.2e-16 MULE 3 yktgkykgallsakvlvgvdaddegf...plafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevfpdarhrlClwHilrnl 92 g+ykg ll+a+ + d+ f p+af++v+ E+ sw wf+e+l + + + +++++D++++++k ++ v+p a+h C++H+ rnl Chr1_4 6912960 QLVGPYKGCLLIAC---AQDG---NF*ifPIAFGVVDGETDASWAWFFEKLAEIVPDsdDLMIVSDRHSSIYKGLSVVYPRAHHGACAVHLERNL 6913048 55688888888855...5555...56666**************************967899*********************************8 PP == domain 7 score: 58.8 bits; conditional E-value: 4.9e-19 MULE 7 kykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevfpdarhrlClwHilrnl 92 k +g ll+a+ g da+ +++plafa+v+sE+ + wtwf+ +l++ + + +++++D++ +++ +k+vfp+a+h C+ H+ rn+ Chr1_4 7210318 KIQGGLLTAS---GQDANFQVYPLAFAVVDSENDDAWTWFFTKLERIIADsnTLTILSDRHESIKVGVKKVFPQAHHGACIIHLCRNI 7210402 4456666755...********************************999956688*********************************8 PP == domain 8 score: 38.6 bits; conditional E-value: 9.5e-13 MULE 3 yktgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevf 76 + +gky g ll+a+ g da+ ++fp+af++v+sE+ + w+wf++ l a+ + ++++++D++++++ +++v+ Chr1_4 7688831 HLKGKYGGCLLTAS---GQDANFQVFPIAFGVVDSENDDAWEWFFRVLSTAIPDgdNLTFVSDRHSSIYTGLRRVI 7688903 889*********77...***********************************9559***************99997 PP >> Transposase_24 Plant transposase (Ptta/En/Spm family) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 55.9 0.0 4.6e-18 1.2e-17 50 121 .. 4561267 4561344 .. 4561265 4561346 .. 0.96 2 ! 37.9 0.1 1.7e-12 4.6e-12 1 48 [. 4824909 4824960 .. 4824909 4824963 .. 0.96 3 ! 30.3 0.0 3.7e-10 1e-09 2 49 .. 4887185 4887236 .. 4887184 4887238 .. 0.95 4 ! 62.9 0.0 3.3e-20 8.8e-20 51 139 .. 5563835 5563956 .. 5563833 5563957 .. 0.94 5 ! 45.8 0.0 6.1e-15 1.6e-14 55 121 .. 5600202 5600271 .. 5600195 5600273 .. 0.94 6 ! 46.7 0.0 3.2e-15 8.6e-15 55 117 .. 5617534 5617599 .. 5617529 5617606 .. 0.89 7 ! 36.3 0.0 5.3e-12 1.4e-11 3 50 .. 8357993 8358044 .. 8357991 8358046 .. 0.95 Alignments for each domain: == domain 1 score: 55.9 bits; conditional E-value: 4.6e-18 Transposase_24 50 leeekgktpdraevfieTHtkkDGtyvdekaeeiaekvkerlqereseseseasaesdgssr......edkneiflqv 121 +ee++g++++ +evfi+THtk+DGtyvd+ka+ ia++++++++ ++se+e+ asa+sdg+sr ++++ ifl+v Chr1_4 4561267 QEEKLGRPVHLGEVFIQTHTKSDGTYVDRKAKMIAQTYERNVRSKLSELEAAASAVSDGTSRppeltvDEYTAIFLEV 4561344 46777**********************************************************************997 PP == domain 2 score: 37.9 bits; conditional E-value: 1.7e-12 Transposase_24 1 dpevwktLvayWdtekakkrseknkkar....nglgihkHtsgsksfaqirk 48 dpevwk+Lv +W+++k++++s ++++ar +glgihkH+sg++s++++ + Chr1_4 4824909 DPEVWKGLVSFWRDPKSERKSLNSRNARyhdpDGLGIHKHRSGQTSYKARTR 4824960 79**********************************************9987 PP == domain 3 score: 30.3 bits; conditional E-value: 3.7e-10 Transposase_24 2 pevwktLvayWdtekakkrseknkkar....nglgihkHtsgsksfaqirke 49 p vw++Lv++W++++++ rs+++++ar +glgi+kH+ g++sf+ ++++ Chr1_4 4887185 PLVWAGLVRFWRDPASQIRSINSRNARyhdpDGLGISKHRFGQTSFKSRARK 4887236 679*********************************************9984 PP == domain 4 score: 62.9 bits; conditional E-value: 3.3e-20 Transposase_24 51 eeekgktpdraevfieTHtkkDGtyvdekaeeiaekvkerlqereseseseasaesdgssr......edkneif............. 118 ee++g+++ +evfi+THtk++Gtyvd+kae+ia ++++++e++se+e+ asa+sdgssr +++ if Chr1_4 5563835 EEKMGRPVPLGEVFIQTHTKSNGTYVDQKAEKIALAYEQNVREKLSELEAAASAVSDGSSRprdltlDEYAAIFlevrcslsfses* 5563921 6677***************************************************************999***************** PP Transposase_24 119 ................lqvvgkdkkgrvyglGslqee 139 + ++kd +g++yglG+l+e+ Chr1_4 5563922 rhlgsvtnylplyfl*S--TEKDARGNPYGLGCLKET 5563956 *********99765554..69*************997 PP == domain 5 score: 45.8 bits; conditional E-value: 6.1e-15 Transposase_24 55 gktpdraevfieTHtkkDGtyvdekaeeiaekvkerlqereseseseasaesdgssr...edkneiflqv 121 ++tpd++ +++eTH+k+DG+++d+k++ei+++ ++++qe+es ++s++ +es+gs++ ++kn i+ qv Chr1_4 5600202 ESTPDFLLLLDETHRKPDGSFIDRKSKEIYKEESSKIQEEESLLCSGDTTESTGSGGlsvQAKNMIYAQV 5600271 79*****************************************************************997 PP == domain 6 score: 46.7 bits; conditional E-value: 3.2e-15 Transposase_24 55 gktpdraevfieTHtkkDGtyvdekaeeiaekvkerlqereseseseasaesdgssr...edknei 117 ++tp+++ ++++TH+k+DG+++d+k+eei+++v++r+qe++s+++s + +es++s++ +++++i Chr1_4 5617534 ETTPNFLVLLDKTHRKPDGSFIDGKSEEIYNEVSSRIQEESSQLCSNNTTESTASGGlfvQAEQDI 5617599 78****************************************************999998544444 PP == domain 7 score: 36.3 bits; conditional E-value: 5.3e-12 Transposase_24 3 evwktLvayWdtekakkrseknkkar....nglgihkHtsgsksfaqirkel 50 +w+ +vayW+t+ ak+rsek++ +r +glg+h H+sgs+s+a+++++l Chr1_4 8357993 AHWRVMVAYWRTPIAKERSEKARSSRlfnrDGLGPHCHRSGSRSYAKVQDTL 8358044 68**********************************************9976 PP >> MuDR MuDR family transposase # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 45.0 3.5 6.3e-15 1.7e-14 2 67 .] 3981324 3981389 .. 3981323 3981389 .. 0.98 2 ! 51.2 0.2 7.3e-17 2e-16 2 67 .] 4272585 4272650 .. 4272584 4272650 .. 0.97 3 ! 53.2 1.4 1.8e-17 4.9e-17 3 67 .] 4588125 4588191 .. 4588123 4588191 .. 0.93 4 ! 41.3 0.5 9.2e-14 2.5e-13 3 67 .] 4712680 4712747 .. 4712678 4712747 .. 0.94 5 ! 61.7 1.0 3.8e-20 1e-19 2 67 .] 5914900 5914965 .. 5914899 5914965 .. 0.98 6 ! 51.5 0.5 5.8e-17 1.6e-16 2 67 .] 7688624 7688689 .. 7688623 7688689 .. 0.98 Alignments for each domain: == domain 1 score: 45.0 bits; conditional E-value: 6.3e-15 MuDR 2 pelevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCkkegCpWrvraskdkdsktfki 67 ++++vG +Fk+ e+k+av++++ik+r ++ ++++k+ y+++C++++C+W ++as++++++ f+i Chr1_4 3981324 DTMRVGLCFKDLAEMKKAVDWCSIKRRQKCLLRETEKDVYVVECERWHCKWSICASRREEDGLFEI 3981389 789************************************************************998 PP == domain 2 score: 51.2 bits; conditional E-value: 7.3e-17 MuDR 2 pelevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCkkegCpWrvraskdkdsktfki 67 + +++G+vF++k e+++a++ y++k f+f++ ksdk r++a+C +++C+Wrv+ + ++s+ ++i Chr1_4 4272585 DAIYIGRVFSNKGELQKALTVYSMKMLFNFRINKSDKIRVIAVCHDKKCDWRVYTTFHENSENMEI 4272650 5689**********************************************************9998 PP == domain 3 score: 53.2 bits; conditional E-value: 1.8e-17 MuDR 3 elevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCk..kegCpWrvraskdkdsktfki 67 l++ ++F++ e+fk+av +y++k+r+++k ++s++ r+ akC+ + +C+Wr+++s+dk+++++++ Chr1_4 4588125 SLRLAKTFNNPEDFKIAVLRYSLKTRYDIKLYRSQSLRVGAKCTdtDVNCQWRCYCSYDKKKQKMQV 4588191 688899*************************************965555****************98 PP == domain 4 score: 41.3 bits; conditional E-value: 9.2e-14 MuDR 3 elevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCk...kegCpWrvraskdkdsktfki 67 +e+ q+F ske +++ v++ a k +f+ ++ sd++r++++C+ + gC W++r++k+k+s++f++ Chr1_4 4712680 GIELHQEFVSKEVVQDLVNRAANKYCFATATIASDPQRLMLRCRqskTTGCRWYLRCAKVKSSDCFSV 4712747 6899****************************************876666****************97 PP == domain 5 score: 61.7 bits; conditional E-value: 3.8e-20 MuDR 2 pelevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCkkegCpWrvraskdkdsktfki 67 ++l vG+vFksk ++k+ ++++ai+++f+f++ +s+++ +++kC +++CpWrv+ask+ s++f++ Chr1_4 5914900 DKLFVGRVFKSKSDCKIKIAIHAINRKFHFRTARSTPKFMVLKCISKTCPWRVYASKVDTSDSFQV 5914965 789*************************************************************98 PP == domain 6 score: 51.5 bits; conditional E-value: 5.8e-17 MuDR 2 pelevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCkkegCpWrvraskdkdsktfki 67 +el vG+vFk+k++++ ++ +a+++rf+f+ +s+k+ ++++C +e+CpWrv+ k +ds+ ++i Chr1_4 7688624 DELFVGRVFKNKQDCNVKLAVHALNRRFHFRRDRSCKKLMTLTCISETCPWRVYIVKLEDSDNYQI 7688689 789*************************************************************98 PP >> Transposase_23 TNP1/EN/SPM transposase # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 25.6 0.0 6.8e-09 1.8e-08 36 73 .] 5178071 5178108 .. 5178070 5178108 .. 0.97 2 ! 68.4 0.1 3e-22 8.3e-22 2 73 .] 5178330 5178401 .. 5178329 5178401 .. 0.97 3 ! 82.6 0.0 1.2e-26 3.2e-26 3 73 .] 6084515 6084586 .. 6084513 6084586 .. 0.97 4 ! 86.7 0.1 5.8e-28 1.6e-27 2 73 .] 6084806 6084877 .. 6084805 6084877 .. 0.97 Alignments for each domain: == domain 1 score: 25.6 bits; conditional E-value: 6.8e-09 Transposase_23 36 iPLGpnaakVlVdvvlvkdAalWRptseietledalgs 73 iPLG+naa+Vl +++ v +A++WRpt++i+tl++a+gs Chr1_4 5178071 IPLGRNAAAVLLKSASVMSASVWRPTPTIFTLGEAVGS 5178108 8***********************************96 PP == domain 2 score: 68.4 bits; conditional E-value: 3e-22 Transposase_23 2 ksqkkckllDwkssddvVaegrvcssdpdelvnriPLGpnaakVlVdvvlvkdAalWRptseietledalgs 73 +s++kc l+D+++s+++Va g+v s+dp+++v+++PLG na+kV+V+v +v+ A +WR +se ++++da+g+ Chr1_4 5178330 GSKQKCFLFDIDNSGQKVAVGCVSSTDPAKKVHHVPLGSNASKVWVEVSKVDGARVWRVNSEDTFIADAVGT 5178401 5799******************************************************************96 PP == domain 3 score: 82.6 bits; conditional E-value: 1.2e-26 Transposase_23 3 sqkkckllDwkssdd.vVaegrvcssdpdelvnriPLGpnaakVlVdvvlvkdAalWRptseietledalgs 73 ++++c+llDw+s+dd vV+eg++cs++++++++riP+G+naa+V+V++v + +++lWRpts+i+tl++ lg+ Chr1_4 6084515 AGVRCQLLDWCSDDDvVVGEGEFCSAEQMYKIGRIPFGRNAAAVVVKSVSNATTSLWRPTSSIFTLGETLGN 6084586 678******************************************************************985 PP == domain 4 score: 86.7 bits; conditional E-value: 5.8e-28 Transposase_23 2 ksqkkckllDwkssddvVaegrvcssdpdelvnriPLGpnaakVlVdvvlvkdAalWRptseietledalgs 73 +++kkc++lD+k+ ++ Vaegrvc s+p+++v+++PLGpna+kV+V+v +++dAa+WRp+sei+t++da+gs Chr1_4 6084806 SAKKKCIMLDYKNGRERVAEGRVCASNPSDTVHHMPLGPNASKVCVEVSKIGDAAVWRPNSEIQTIADAVGS 6084877 6899******************************************************************96 PP >> Plant_tran Plant transposon protein # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 41.2 0.3 1.3e-13 3.4e-13 157 210 .. 4609067 4609120 .. 4609065 4609121 .. 0.96 2 ! 70.6 0.0 1.3e-22 3.5e-22 4 91 .. 4692613 4692699 .. 4692610 4692704 .. 0.89 3 ! 123.5 0.0 8.2e-39 2.2e-38 111 210 .. 5454233 5454332 .. 5454229 5454333 .. 0.96 Alignments for each domain: == domain 1 score: 41.2 bits; conditional E-value: 1.3e-13 Plant_tran 157 eaarkdverafGvlqar.fkivakparlwekedlakimkaciilhnmivederdl 210 e +rkd+e afGvl+ fki++kparl + +dl+ im++ciilhnmive+e+++ Chr1_4 4609067 EECRKDIEHAFGVLH-N*FKIIRKPARLRDISDLTIIMRSCIILHNMIVENEQET 4609120 789***********7.999*********************************985 PP == domain 2 score: 70.6 bits; conditional E-value: 1.3e-22 Plant_tran 4 vfaarylraptaedverllkigesrgfpgmlgsldcmh..wkwkncpta.wkgqytrgdkksptiileavasydlwiwhaffglpgsnndi 91 + ++ylr+pta+d++ l ige+rgfpgm+ s+dcmh w +ncpta gq +rg+ k p i+leavas+dlw+wh+ffg +++n+ Chr1_4 4692613 FSRDEYLRKPTAQDIDWLHMIGEIRGFPGMMESIDCMH*eW--NNCPTA*K-GQCARGSGK-PMIVLEAVASQDLWMWHTFFGPLSTLNES 4692699 44579********************************8845..8**98555.9******99.*************************9975 PP == domain 3 score: 123.5 bits; conditional E-value: 8.2e-39 Plant_tran 111 vkyvvnekqynlayyladGiypkwatlvksirlpqlekkklfaqkq.eaarkdverafGvlqarfkivakparlwekedlakimkaciilh 200 +y+vne++y+l+yyl+dGiypk +t+++si lpq+ k+ lfa+ + e+ rkdverafGvlqarf+iv++pa +w+k ++++im+aci lh Chr1_4 5454233 FSYLVNETEYHLGYYLTDGIYPKSTTFIQSISLPQSLKASLFAT-K*ETYRKDVERAFGVLQARFAIVKNPALIWDKVKIENIMRACITLH 5454322 689***************************************96.77799***************************************** PP Plant_tran 201 nmivederdl 210 n ivederd Chr1_4 5454323 NRIVEDERDG 5454332 ********96 PP >> hATC hAT family dimerisation domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 78.3 0.2 2.8e-25 7.6e-25 1 84 [] 108901 108983 .. 108901 108983 .. 0.99 2 ! 84.4 0.1 3.5e-27 9.4e-27 2 84 .] 5443817 5443901 .. 5443816 5443901 .. 0.99 3 ! 55.3 0.0 4.1e-18 1.1e-17 2 77 .. 5790613 5790686 .. 5790612 5790691 .. 0.95 Alignments for each domain: == domain 1 score: 78.3 bits; conditional E-value: 2.8e-25 hATC 1 eldeyleelpvlrrneefdvlewwkqnssryPnlsklardvLsipvssaasErsFstlgkvllesrnsleplnveallcieqwl 84 eld+ylee +++r+++f+vl ww+ n+++yP+lsk+a dvLs+p ++++ ++F t +k ++++r+sl++ ++eal+c+++w+ Chr1_4 108901 ELDQYLEE-SLIPRSQDFEVLGWWSLNRTKYPTLSKMAADVLSVPFCTVSPDSVFDTEVKKMDNYRSSLRHVTLEALFCAKDWF 108983 89******.**************************************************************************5 PP == domain 2 score: 84.4 bits; conditional E-value: 3.5e-27 hATC 2 ldeyleelpvlrrne..efdvlewwkqnssryPnlsklardvLsipvssaasErsFstlgkvllesrnsleplnveallcieqwl 84 l+ yl+++p l++++ ++++l++wk+n++ry l +a+d++sip++++asE++Fs +g+vl+++rn+l p+nv+al+c+++wl Chr1_4 5443817 LEIYLDDEPRLEMKTfsDMEILSFWKENQHRYTDLASMASDLFSIPITTVASESAFSVGGRVLNPFRNRLLPQNVQALICTRNWL 5443901 899*********************************************************************************7 PP == domain 3 score: 55.3 bits; conditional E-value: 4.1e-18 hATC 2 ldeyleelpvlrrneefdvlewwkqnssryPnlsklardvLsipvssaasErsFstlgkvllesrnsleplnveal 77 ld yl+e + l rn +dvl++wk+n++r+ l + +dvLsip++++as ++Fs++ +vl+++rn+l p+nv + Chr1_4 5790613 LDIYLDESESLFRN--LDVLSYWKDNQNRFGGLASMTCDVLSIPITKVASNSAFSIGSRVLTPYRNRLLPENVHVC 5790686 899****9999998..9*******************************************************9765 PP >> RnaseH RNase H [No individual domains that satisfy reporting thresholds (although complete target did)] >> RVP_2 Retroviral aspartyl protease # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 21.0 0.0 2.8e-07 7.4e-07 64 134 .. 4803315 4803386 .. 4803302 4803387 .. 0.89 Alignments for each domain: == domain 1 score: 21.0 bits; conditional E-value: 2.8e-07 RVP_2 64 pllvssPggdika.tkrspsvsieiqgvdfladlilleskdlDviLGldWlakhkgvidCaertvtLtsekg 134 l+v+ gg+ a +r+ v i+i + +++adli+ + DviLG+dWl +++ +dC ++ v +++++g Chr1_4 4803315 HLHVKVAGGQFLAvLERAKGVDIQIARESMPADLIISPVELYDVILGMDWLDHYRVHLDCHRGRVSFERPEG 4803386 68899888887661578899**********************************************999988 PP >> Transposase_mut Transposase, Mutator family [No individual domains that satisfy reporting thresholds (although complete target did)] >> DUF659 Protein of unknown function (DUF 659) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 24.1 0.0 2.2e-08 6e-08 109 148 .. 5645305 5645344 .. 5645301 5645345 .. 0.92 Alignments for each domain: == domain 1 score: 24.1 bits; conditional E-value: 2.2e-08 DUF659 109 gklleekyksifwtpcaahcinlmLedisklewvseiiek 148 g+l ++++++++wtpcaahci lmLedi+k++ v+++i++ Chr1_4 5645305 GQLSMANRPHLYWTPCAAHCIYLMLEDIGKISEVKTVITQ 5645344 5677899******************************987 PP Internal pipeline statistics summary: ------------------------------------- Query sequence(s): 1 (10142557 residues) Target model(s): 46 (7833 nodes) Passed MSV filter: 46 (1); expected 46.0 (1) Passed bias filter: 46 (1); expected 46.0 (1) Passed Vit filter: 46 (1); expected 46.0 (1) Passed Fwd filter: 46 (1); expected 46.0 (1) Initial search space (Z): 46 [actual number of targets] Domain search space (domZ): 17 [number of targets reported over threshold] # CPU time: 2067.32u 1.74s 00:34:29.06 Elapsed: 00:34:31.17 # Mc/sec: 38.36 // Query: Chr1_5 [L=10142557] Description: CHROMOSOME dumped from ADB: Jun/20/09 14:53; last updated: 2009-02-02 Scores for complete sequence (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Model Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 0 3030.6 26.6 3.3e-104 338.9 0.4 17.5 15 RVT_2 Reverse transcriptase (RNA-dependent DNA pol 0 2653.5 34.6 9.3e-198 649.1 0.0 9.8 9 ATHILA ATHILA ORF-1 family 0 1346.6 41.7 4.1e-48 155.3 0.0 21.1 16 RVT_1 Reverse transcriptase (RNA-dependent DNA pol 0 1258.8 46.5 5.9e-30 95.7 0.0 23.5 19 rve Integrase core domain 4.3e-266 868.2 6.6 2.7e-92 299.7 0.0 4.4 4 Transposase_21 Transposase family tnp2 1e-246 804.3 6.1 4.5e-116 377.4 0.0 4.4 4 Plant_tran Plant transposon protein 2.5e-220 718.5 12.6 9.2e-57 183.9 0.5 8.1 7 Peptidase_C48 Ulp1 protease family, C-terminal catalytic d 7.4e-214 684.6 91.1 2.6e-23 73.8 0.2 25.3 14 Retrotrans_gag Retrotransposon gag protein 2.1e-98 317.6 29.7 6.5e-25 79.5 0.0 11.6 5 Transposase_24 Plant transposase (Ptta/En/Spm family) 4.5e-90 287.3 22.6 2.4e-27 86.3 0.2 6.7 5 hATC hAT family dimerisation domain 3.9e-55 177.3 5.4 1.8e-51 165.4 1.1 2.3 1 DUF659 Protein of unknown function (DUF 659) 3.8e-52 165.6 32.1 1.2e-16 51.9 1.8 6.9 3 MuDR MuDR family transposase 2.8e-43 137.9 18.3 2.5e-20 64.3 0.1 6.7 3 MULE MULE transposase domain 2.8e-29 92.4 1.3 2.1e-28 89.6 0.3 2.3 1 Transposase_23 TNP1/EN/SPM transposase 2.7e-19 61.2 0.0 6.5e-13 40.6 0.0 3.5 1 RVP_2 Retroviral aspartyl protease 1.1e-12 40.3 1.8 0.00039 12.6 0.1 9.3 0 RnaseH RNase H 3.6e-10 30.7 1.5 2.6e-08 24.5 0.0 2.9 1 Transposase_mut Transposase, Mutator family Domain annotation for each model (and alignments): >> RVT_2 Reverse transcriptase (RNA-dependent DNA polymerase) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 338.9 0.4 1.2e-104 3.3e-104 1 244 [. 2966927 2967170 .. 2966927 2967172 .. 0.99 2 ! 304.0 0.0 5.6e-94 1.5e-93 3 245 .. 3060586 3060827 .. 3060584 3060828 .. 0.99 3 ! 316.3 0.0 1e-97 2.8e-97 1 244 [. 4524254 4524497 .. 4524254 4524499 .. 0.99 4 ! 76.7 0.0 1.5e-24 4e-24 3 104 .. 4595746 4595847 .. 4595744 4595851 .. 0.93 5 ! 84.7 0.1 5.2e-27 1.4e-26 129 244 .. 4685365 4685483 .. 4685363 4685485 .. 0.92 6 ! 125.4 1.2 1.9e-39 5.2e-39 35 192 .. 4870232 4870366 .. 4870228 4870368 .. 0.97 7 ! 90.9 0.0 6.5e-29 1.8e-28 7 110 .. 4938482 4938585 .. 4938478 4938597 .. 0.93 8 ! 64.4 0.0 7.9e-21 2.1e-20 162 245 .. 4938643 4938725 .. 4938640 4938726 .. 0.96 9 ! 34.0 0.1 1.5e-11 4.2e-11 7 70 .. 5478096 5478159 .. 5478094 5478165 .. 0.92 10 ! 203.7 0.0 2.5e-63 6.6e-63 6 142 .. 5640998 5641134 .. 5640997 5641138 .. 0.98 11 ! 276.3 0.1 1.6e-85 4.4e-85 7 245 .. 5731693 5731937 .. 5731688 5731938 .. 0.97 12 ! 231.0 0.0 1.1e-71 3.1e-71 50 245 .. 5928421 5928620 .. 5928419 5928621 .. 0.98 13 ! 277.0 0.1 9.7e-86 2.6e-85 35 244 .. 6050428 6050637 .. 6050424 6050639 .. 0.99 14 ! 311.5 0.0 2.9e-96 7.9e-96 2 245 .. 6425943 6426186 .. 6425942 6426187 .. 0.99 15 ! 276.2 0.0 1.8e-85 4.8e-85 2 245 .. 7019225 7019472 .. 7019224 7019473 .. 0.97 Alignments for each domain: == domain 1 score: 338.9 bits; conditional E-value: 1.2e-104 RVT_2 1 nktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngelee 95 n+twel++lp+g+k+ig+kWv+k K+n++ge+erykARlVakG++q++gidy+e+f+pv++le++rl+++laa++k++++q+Dvk+aFLng+lee Chr1_5 2966927 NDTWELTSLPNGHKAIGVKWVYKAKKNSKGEVERYKARLVAKGYSQRAGIDYDEVFAPVARLETVRLIISLAAQNKWKIHQMDVKSAFLNGDLEE 2967021 79********************************************************************************************* PP RVT_2 96 evYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLk 190 evY++qp+G+ +k++e+kv++Lkk+lYgLkqapraW++++++++++++f k+ ++++l++k ++e+++i +lYVDDl+++g++ ++ ee+k+e++ Chr1_5 2967022 EVYIEQPQGYIVKGEEDKVLRLKKALYGLKQAPRAWNTRIDKYFKEKDFIKCPYEHALYIKIQKEDILIACLYVDDLIFTGNNPSMFEEFKKEMT 2967116 *********************************************************************************************** PP RVT_2 191 kefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstple 244 kefem+d+g ++y+Lg+e++++++gi+++qe y+k++lkkfkm+d++pv tp+e Chr1_5 2967117 KEFEMTDIGLMSYYLGIEVKQEDNGIFITQEGYAKEVLKKFKMDDSNPVCTPME 2967170 ****************************************************97 PP == domain 2 score: 304.0 bits; conditional E-value: 5.6e-94 RVT_2 3 twelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleeev 97 tw++++lp+gkk++g+kWvf+lK+++dg++er+kARlV+ G++q+eg+dy+etf+pv+k+ ++r++l+ +++ ++e++q+Dv++aFL+g+l+eev Chr1_5 3060586 TWTVEDLPPGKKALGCKWVFRLKYKSDGTLERHKARLVVLGNNQTEGLDYTETFAPVAKMVTVRAFLQQVVSLDWEVHQMDVHNAFLHGDLDEEV 3060680 9********************************************************************************************** PP RVT_2 98 YvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLkke 192 Y++ p+Gf + + ++kvc+L+kslYgLkqapr+W++kl+++l+++gf ++ +d +lf+ +k+ + vl+YVDDl+i+g++ ++i+e+k++L+++ Chr1_5 3060681 YMQFPPGFRTGD-KTKVCRLRKSLYGLKQAPRCWFAKLTSALKNYGFIQDISDYSLFIFHKNGVRLHVLVYVDDLIITGTTIAVITEFKHYLSSC 3060774 *********995.89******************************************************************************** PP RVT_2 193 femkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 f mkdlg l+yfLg+e++r+ egi+l+q+ky+ ++++++++ +kp+s pl++ Chr1_5 3060775 FYMKDLGILRYFLGIEVARSPEGIYLCQRKYALDIITETGLLGVKPASFPLDQ 3060827 **************************************************987 PP == domain 3 score: 316.3 bits; conditional E-value: 1e-97 RVT_2 1 nktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngelee 95 n+tw+lv++++ ++++g++WvfklK+ +g i++ykARlVakGf+q++g+dy etfspv+k+++ir++l++a++k++ l+qlDv++aFL+g+l+e Chr1_5 4524254 NHTWDLVPPNPTQHLVGCRWVFKLKYLPNGLIDKYKARLVAKGFNQQYGVDYAETFSPVIKATTIRVVLDVAVKKNWPLKQLDVNNAFLQGTLTE 4524348 79********************************************************************************************* PP RVT_2 96 evYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLk 190 evY++qp+Gf+dk+++++vc+L+k++YgLkqapraWy +l++ ll++gf +s ad++lf+++++++l+++l+YVDD++++gs+++ ++++ ++L+ Chr1_5 4524349 EVYMAQPPGFVDKDRPSHVCRLRKAIYGLKQAPRAWYMELKQHLLNIGFVNSLADTSLFIYSHGTTLLYLLVYVDDIIVTGSDHKSVSAVLSSLA 4524443 *********************************************************************************************** PP RVT_2 191 kefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstple 244 ++f++kd +l+yfLg+e +r+++g++l+q+ky+++ll+k++m dakpv+tpl Chr1_5 4524444 ERFSIKDPTDLHYFLGIEATRTNTGLHLMQRKYMTDLLAKHNMLDAKPVATPLP 4524497 ****************************************************86 PP == domain 4 score: 76.7 bits; conditional E-value: 1.5e-24 RVT_2 3 twelvelpkgkkviglkWvfklKlnedgeiery.kARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleee 96 tw+lv++p g+++i++ W++k+K n+dg+++ k RlV +G ++g++++etfspvvk ++ir++l++a+e++ ++qlDv++aFL+gelee+ Chr1_5 4595746 TWSLVPKPAGTNIINSIWLYKHKFNADGSLS-R*KFRLVSNGKFLEQGVNFDETFSPVVKPATIRAVLNFAVERHCLVHQLDVQNAFLHGELEET 4595839 9***************************876.45569********************************************************** PP RVT_2 97 vYvkqpeG 104 v + +G Chr1_5 4595840 VTCIHQQG 4595847 97766666 PP == domain 5 score: 84.7 bits; conditional E-value: 5.2e-27 RVT_2 129 raWyeklsevllklgfkkseadkclfvkkkeeel.iivllYVDDlliagsskelieelkeeLkkefemkdlgelkyfLgleier..keegillsq 220 r+W+++++e+++k+ +++s++d+c+++k +++ i++llYVDD+lia+++k+ + elk L++efemkdlg++k++Lg+ei r + +++++sq Chr1_5 4685365 REWNNRFNEFMQKISYERSKYDSCVYFKGLQNGEyIYLLLYVDDILIASKDKKHVCELKVLLNSEFEMKDLGDAKKILGMEIIRdkEGGTLTISQ 4685459 89**************************9988777************************************************9544456999** PP RVT_2 221 ekyvkkl.lkkfkmedakpvstple 244 e y+ k+ +f+m++ak+v+tp+ Chr1_5 4685460 EGYLLKV*R-DFGMDQAKSVNTPMG 4685483 ***999766.699*******99996 PP == domain 6 score: 125.4 bits; conditional E-value: 1.9e-39 RVT_2 35 ykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleeevYvkqpeGfedkkkenkvckLkkslYgLkqapr 129 +kARlVakGftqkeg+dy+e+fspvvk+ si ++l+++a+ ++el+q+Dv+taFL+g l+e +slYgLkq+pr Chr1_5 4870232 HKARLVAKGFTQKEGVDYTEIFSPVVKHVSITYILSMVAHFSMELQQMDVNTAFLHGFLDE-----------------------HSLYGLKQSPR 4870303 7********************************************************9998.......................69********* PP RVT_2 130 aWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLkke 192 +W+ ++e++ gf +s+ d+c+++kk ++ i++llYVD +lia+ +k+ ++elk L+k Chr1_5 4870304 QWNLIFDEFMRGVGFVRSAFDSCVYYKKLGKIYIYLLLYVDYMLIASVDKSSVQELKLLLSKD 4870366 *********************************************************999875 PP == domain 7 score: 90.9 bits; conditional E-value: 6.5e-29 RVT_2 7 velpkgkkviglkWvfklKlnedgeierykAR.lVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleeevYvk 100 v+ ++ k +g+kWvf +K+ne+ ei+ryk lVa+Gf+q+ g+dyeet+spv+++ ++r+l++ +a+++l++ +Dv t++L+g+l++++Y+k Chr1_5 4938482 VTASESVKHVGYKWVFVRKRNEKDEITRYK-T*LVAQGFSQRPGVDYEETYSPVMDAITFRYLMSHSASNNLDMYLMDVVTTYLYGSLDNNIYMK 4938575 6778899**********************9.788************************************************************* PP RVT_2 101 qpeGfedkkk 110 peG++++++ Chr1_5 4938576 IPEGLKVPEA 4938585 *****99865 PP == domain 8 score: 64.4 bits; conditional E-value: 7.9e-21 RVT_2 162 liivllYVDDlliagsskelieelkeeLkkefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 ++i+++YVDDl i+g+ ke i+++ +++k+efemkdlg++k++Lgl+ie+ ++gi+++q++y+k++lk+f+m++a+p stp+ + Chr1_5 4938643 FVIIAVYVDDLNIIGTPKE-IDDARTHMKEEFEMKDLGKTKFCLGLQIEHFQDGIFVHQSNYTKRILKRFNMDKANPLSTPMVN 4938725 699************9987.9************************************************************975 PP == domain 9 score: 34.0 bits; conditional E-value: 1.5e-11 RVT_2 7 velpkgkkviglkWvfklKlnedgeierykARlVakGftqke...gidyeetfspvvklesirllla 70 v+ k+ k++g+kWvf +K+ne+ ei+rykARlVa+ f + g+dyeet+sp++++ ++r+l+ Chr1_5 5478096 VTASKSVKPVGYKWVFMRKRNEKYEITRYKARLVAQSF---S*r*GVDYEETYSPIMDTITFRYLMX 5478159 6778999****************************988...788889******************97 PP == domain 10 score: 203.7 bits; conditional E-value: 2.5e-63 RVT_2 6 lvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleeevYvk 100 lvelp g k+iglkWvfk+K+n+dg+i++ykARlVakG+ q++gid++e+f+pv+++e++rl++alaa++++e+++lDvktaFL+gel+e vYv+ Chr1_5 5640998 LVELPAGVKPIGLKWVFKTKQNSDGSINKYKARLVAKGYVQRHGIDFDEVFAPVARIETVRLIIALAASNGWEIHHLDVKTAFLHGELKEVVYVT 5641092 899******************************************************************************************** PP RVT_2 101 qpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllkl 142 qpeG+++k++e+kv+kL+k+lYgLkqapraW++kl+++l++l Chr1_5 5641093 QPEGYVTKGNEEKVYKLNKALYGLKQAPRAWNNKLNSILKEL 5641134 ***************************************986 PP == domain 11 score: 276.3 bits; conditional E-value: 1.6e-85 RVT_2 7 velpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleeevYvkq 101 v+ ++ k++g+kWvf +K+ne+ ei+rykARlVa+Gf+q+ g+dyeet+spv+++ ++r+l++l+++++l++ +Dv ta+L+g+l++++Y+k Chr1_5 5731693 VTASESVKPVGYKWVFVRKRNEKDEITRYKARLVAQGFSQRPGVDYEETYSPVMDAITFRYLMSLSTSNNLDMYLMDVVTAYLYGSLDNDIYMKI 5731787 6778899**************************************************************************************** PP RVT_2 102 peGfedkkk.......enkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeL 189 peG++++++ + +++kL++slYgLkq++r+Wy++ls++llk+g+ ++e +c+f+kk+ ++++i+ +YVDDl i+g+ ke i+++ +++ Chr1_5 5731788 PEGLKVPEAldsskskDIYMVKLQRSLYGLKQSGRMWYNRLSDYLLKKGYVNNEICPCVFIKKSPSGFVIIDVYVDDLNIIGTPKE-IDDARTHM 5731881 *****9988887776677899*************************************************************9987.9******* PP RVT_2 190 kkefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 k+efemkdlg++k++Lgl+ie+ ++gi+++q++y+k++lk+f+m++a+p stp+ + Chr1_5 5731882 KEEFEMKDLGKTKFCLGLQIEHFQDGIFVHQSNYTKRILKRFNMDKANPLSTPMVN 5731937 *****************************************************975 PP == domain 12 score: 231.0 bits; conditional E-value: 1.1e-71 RVT_2 50 idyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleeevYvkqpeGfedkkk....enkvckLkkslYgLkqapraWyeklsevll 140 +dy+etfspv+k+++++lll+++a+k++ l+qlD+++aFLng+l+ee+Y+k p+G+ d k +n vc+Lkks+YgLkqa+r+W++k+se ll Chr1_5 5928421 LDYTETFSPVAKMATVKLLLKVSASKQWFLNQLDISNAFLNGDLDEEIYMKLPDGYADIKGdslpPNAVCRLKKSIYGLKQASRQWFKKFSESLL 5928515 69*******************************************************988788999***************************** PP RVT_2 141 klgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLkkefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmed 235 klgf k++ d++lfv+ +++++i++l+YVDD++ia+++++l +l+e+Lk++f++++lg lkyfLgle++r++egi+l+q+ky+ +ll++++m d Chr1_5 5928516 KLGFMKQQGDHTLFVRCQGSDFIALLVYVDDIVIASTTESLAISLTEALKESFKLRELGPLKYFLGLEVARTTEGISLCQRKYALELLTSAGMLD 5928610 *********************************************************************************************** PP RVT_2 236 akpvstplea 245 +kp+++p+++ Chr1_5 5928611 CKPSTIPMTP 5928620 ********87 PP == domain 13 score: 277.0 bits; conditional E-value: 9.7e-86 RVT_2 35 ykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleeevYvkqpeGfedkkkenkvckLkkslYgLkqapr 129 ykARlVakG+ q++g+d+ee+f+pv+++e+irll++laa++++e+++lDvktaFL+gel+e+vYv qpeGfe k++e+kv+kL+k+lYgL+qapr Chr1_5 6050428 YKARLVAKGYVQQYGVDFEEVFAPVARIETIRLLINLAASHGWEIHHLDVKTAFLHGELKETVYVYQPEGFERKGSEDKVYKLNKALYGLRQAPR 6050522 9********************************************************************************************** PP RVT_2 130 aWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLkkefemkdlgelkyfLgleierkeegillsqekyv 224 aW++kl+++l +l+f k++++++++ k+ +++l+++++YVDDl+++g++ ++i+++kee++++fem++lg+l+y+Lg+e+ ++++gi l+q++y+ Chr1_5 6050523 AWNNKLNHILVELQFLKCSKEPSVYRKEVSKDLLLIAIYVDDLFVTGTNLDIINKFKEEMSSKFEMSNLGKLTYYLGIEVIQHKDGIALNQNRYA 6050617 *********************************************************************************************** PP RVT_2 225 kkllkkfkmedakpvstple 244 k+l++++m d++ v+tp+e Chr1_5 6050618 LKILEEAGMIDCNRVHTPME 6050637 *******************8 PP == domain 14 score: 311.5 bits; conditional E-value: 2.9e-96 RVT_2 2 ktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleee 96 +tw+lv+++++++++++kWvfk+Kl+ dg+i++ kARlVakGf q+eg+dy etfspvv++++irl+l+++++k++ ++qlDv++aFL+gel+e Chr1_5 6425943 HTWSLVPPTDDMNILSSKWVFKTKLHPDGSIDKLKARLVAKGFDQEEGVDYLETFSPVVRTATIRLVLDVSTSKGWPIKQLDVSNAFLHGELQEP 6426037 79********************************************************************************************* PP RVT_2 97 vYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLkk 191 v++ qp+Gf d++k+++vc+L+k++YgLkqapraW++++s++ll++gf s++d++lfv +++ +++++llYVDD+l++gs+++l+e+l ++Lk+ Chr1_5 6426038 VFMYQPSGFIDPQKPTHVCRLTKAIYGLKQAPRAWFDTFSNFLLDYGFVCSKSDPSLFVCHQDGKILYLLLYVDDILLTGSDQSLLEDLLQALKN 6426132 *********************************************************************************************** PP RVT_2 192 efemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 +f+mkdlg +yfLg++ie ++g++l+q++y++++l++++m+d++p+ tpl + Chr1_5 6426133 RFSMKDLGPPRYFLGIQIEDYANGLFLHQTAYATDILQQAGMSDCNPMPTPLPQ 6426186 ***************************************************976 PP == domain 15 score: 276.2 bits; conditional E-value: 1.8e-85 RVT_2 2 ktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleee 96 tw++++lp gk ++g+kW+ ++K +dg+ier+kARlVakG+tq+egid+ +tfspv+k+ ++++ll+la ++k+ l+qlD+++a Lng+leee Chr1_5 7019225 GTWSICDLPAGKVAVGCKWIITIKFLADGSIERHKARLVAKGYTQQEGIDFFNTFSPVAKMVTVKVLLSLAPKMKWYLHQLDISNALLNGDLEEE 7019319 69********************************************************************************************* PP RVT_2 97 vYvkqpeGfedkkk....enkvckLkkslYgLk.qapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelk 186 +Y+k p+G+++ + +n vc+L+ks+YgLk +r+W+ k++++l +lgf+k++ d++lfvk ++ +++vl+YVDD+lia++++++ +el+ Chr1_5 7019320 IYMKLPPGYSEIQGqevsPNAVCRLHKSIYGLK*A-SRQWFIKFKTTLVSLGFEKCHGDHTLFVKAQDGFFLVVLVYVDDILIASTTEAASAELT 7019413 *********9876667779*************666.69********************************************************* PP RVT_2 187 eeLkkefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 ++L++ f+++dlge k+fLg+ei+r+++gi+l+q+kyv +ll++ +++d+kp+s+p+e+ Chr1_5 7019414 SQLSSFFQLRDLGEPKFFLGIEIARNADGISLCQRKYVLDLLASSDFSDCKPSSIPMEP 7019472 *********************************************************97 PP >> ATHILA ATHILA ORF-1 family # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 52.0 1.3 4.6e-17 1.3e-16 358 457 .. 4637983 4638081 .. 4637977 4638082 .. 0.84 2 ! 649.1 0.0 3.4e-198 9.3e-198 1 458 [] 4867068 4867517 .. 4867068 4867517 .. 0.98 3 ! 133.6 1.8 8.3e-42 2.2e-41 1 108 [. 4906209 4906316 .. 4906209 4906319 .. 0.99 4 ! 638.0 0.1 8e-195 2.2e-194 1 442 [. 4962342 4962782 .. 4962342 4962786 .. 0.98 5 ! 52.0 1.2 4.8e-17 1.3e-16 407 458 .] 5120040 5120091 .. 5120035 5120091 .. 0.97 6 ! 261.6 0.6 1.2e-80 3.4e-80 1 201 [. 5186103 5186305 .. 5186103 5186307 .. 0.99 7 ! 282.6 0.0 5.3e-87 1.4e-86 181 446 .. 5386605 5386868 .. 5386602 5386880 .. 0.95 8 ! 512.8 0.0 7.8e-157 2.1e-156 2 458 .] 5402617 5403077 .. 5402616 5403077 .. 0.95 9 ! 85.0 0.1 4.5e-27 1.2e-26 44 117 .. 5441883 5441956 .. 5441879 5441976 .. 0.93 Alignments for each domain: == domain 1 score: 52.0 bits; conditional E-value: 4.6e-17 ATHILA 358 PskeilsappedeaelteeaeeedvdeededeeaelekfdtsqyhFeehappareskslsevhkklsklqkwckkqdkllkkllkkikklkkklk 452 Ps+ ++++ + e + e +++e + e+ de++++++++ +q++Fe++a+ ++e+++ ++vhkkl++l+ ++k+q+kl+++l+kk++k+k++++ Chr1_5 4637983 PSNFQQAEYGQAEYGQAEFEQAEFSQAEQFDEQEDSCEAAAEQFFFEDYAESDQERDP-GQVHKKLGMLKGLGKFQRKLFSGLKKKVRKMKRAMD 4638076 6766663333444444444444445899******************************.************************************ PP ATHILA 453 ssssq 457 +++q Chr1_5 4638077 GMTVQ 4638081 **998 PP == domain 2 score: 649.1 bits; conditional E-value: 3.4e-198 ATHILA 1 trreeiargkrvveseeevieEdveveyepepvrrrtkelkkkdeltpeeYykllkelefegTryphketlaeLglledvdylfkkakletfmsy 95 +r++eiargk+++++++e+i+Edve+ey+pe++rr+tk+l+k+d l++eeY++l+k +ef++Tryp+++ la+Lglledv++l+++++l+t+m+y Chr1_5 4867068 RRKAEIARGKKAMTERYELIDEDVEDEYMPEQTRRATKLLHKPDILPTEEYVRLFKLNEFCSTRYPCSTSLAQLGLLEDVQHLYQSCHLDTLMAY 4867162 589******************************************************************************************** PP ATHILA 96 pyeaykeetveflstlelelyqesedrekeeeglGyitFkvkgveyslsikqleeifgFpskkgikpkfdkeeLksLwatiasklplnsarsKsn 190 py+ay++et++fl tl+++lyq+++++e+++eglG+++F+v+g+ey+lsik+le +fgFps++g kpk+++e +Lw+ti+s++pln++rsKsn Chr1_5 4867163 PYVAYEDETIQFLFTLQVKLYQGMTSDELDCEGLGFLRFSVHGHEYRLSIKRLEGLFGFPSGTGSKPKYERE---DLWITIGSSVPLNASRSKSN 4867254 *********************************************************************776...78****************** PP ATHILA 191 qirspvirylqrsiAnvlfsrestgtvtnselelldqaLkeiLrrtkdgrklkgdlndtslsvvLldhLlsYreyaatikkk.lrGslcvGGvvT 284 qirspviry+qrs+Anvl+sre+tgtvtns++e++++aLk++Lr+tk+g++l+g++n+t+ls++Ll+hL++Y+++a+++++k +rG+lc+GGvvT Chr1_5 4867255 QIRSPVIRYFQRSVANVLYSREITGTVTNSDMEMIAMALKGTLRQTKNGMSLQGKVNNTPLSILLLIHLCGYKSWAVSNNRKrARGALCIGGVVT 4867349 *********************************************************************************************** PP ATHILA 285 piliavgvplsskglep.raidldylkrkeflelkasddayrykfehselkksellLpskevTtieekenIdfkPskeil...sappedeaelte 375 pilia+gvpl s+glep +d+++l+++efle++++dd++r++fehs ++++++lLps+evT i+e++nIdfkP+ +l +app de++l e Chr1_5 4867350 PILIACGVPLISAGLEP*A-MDIEHLRHCEFLEFAMVDDFHRFRFEHSIDRRANILLPSPEVTLIIEGDNIDFKPEIGCLyyeNAPPLDEDDLLE 4867443 ***************9888.6************************************************************************** PP ATHILA 376 eaeeedvdeededeeaelekfdtsqyhFeehappareskslsevhkklsklqkwckkqdkllkkllkkikklkkklkssssqt 458 ea++ d++ded+ ++ fdts+yhF+eh+ppar+sksl+e+hk++sklqkwckkqdkl++k++k l++kl++sss+t Chr1_5 4867444 EAAS---DGMDEDRAVK---FDTSMYHFAEHVPPARQSKSLTEAHKNNSKLQKWCKKQDKLIAKCFK---LLTDKLSCSSSTT 4867517 ****...9*********...*********************************************97...5789999999875 PP == domain 3 score: 133.6 bits; conditional E-value: 8.3e-42 ATHILA 1 trreeiargkrvveseeevieEdveveyepepvrrrtkelkkkdeltpeeYykllkelefegTryphketlaeLglledvdylfkkakletfmsy 95 +rr+eia gkrv++s++e+i+Ed+e+eyepe+++++tk+l+k+de+t+eeY++++++++f+gTryp +etl eLglledv++ f+k++let+msy Chr1_5 4906209 QRRAEIAIGKRVMSSRYELIDEDIETEYEPESWHKETKLLNKPDEVTVEEYVRFFEMNDFWGTRYPYYETLVELGLLEDVQHQFEKCHLETLMSY 4906303 59********************************************************************************************* PP ATHILA 96 pyeaykeetvefl 108 py aykeet+efl Chr1_5 4906304 PYAAYKEETIEFL 4906316 ************8 PP == domain 4 score: 638.0 bits; conditional E-value: 8e-195 ATHILA 1 trreeiargkrvveseeevieEdvev..eyepepvrrrtkelkkkdeltpeeYykllkelefegTryphketlaeLglledvdylfkkakletfm 93 +rr+eiargkr+++s++e+i+Ed + +yepe++r++tk+l+k+de+t+eeY++l+++++f+g ryp++etl +Lglledv++lf+k++let+m Chr1_5 4962342 QRRAEIARGKRAMSSRYELIDED--I*tDYEPESWRKETKLLNKPDEVTMEEYIRLFEMNDFWGMRYPCYETLTQLGLLEDVQHLFEKCHLETLM 4962434 59********************7..8889****************************************************************** PP ATHILA 94 sypyeaykeetveflstlelelyqesedrekeeeglGyitFkvkgveyslsikqleeifgFpskkgikpkfdkeeLksLwatiasklplnsarsK 188 sy y aykeet+eflstl++e+y++++d e+e++glG++tF+v++++y+lsik+lee+fgFps+kg+kp+fd+eeLk+Lwati+++l lnsarsK Chr1_5 4962435 SYLYAAYKEETIEFLSTLQVEMYEGLTDFELETMGLGFLTFSVDEQRYQLSIKKLEELFGFPSEKGTKPRFDREELKDLWATIGNNLSLNSARSK 4962529 *********************************************************************************************** PP ATHILA 189 snqirspvirylqrsiAnvlfsrestgtvtnselelldqaLkeiLrrtkdgrklkgdlndtslsvvLldhLlsYreyaatikkk.lrGslcvGGv 282 sn+i+sp iry+ rs+Anv++s estgtv+n+++e++d+aL++iLrrtk++++l+gdln+t++++ Ll+hL++Yr++a t+ kk +rG+l vGGv Chr1_5 4962530 SNKIQSPMIRYFERSVANVFYSWESTGTVSNTDMEMIDSALTGILRRTKGKNVLRGDLNNTPPVMPLLIHLCGYRKWALTNIKKnVRGALFVGGV 4962624 *********************************************************************************9999********** PP ATHILA 283 vTpiliavgvplsskglepraidldylkrkeflelkasddayrykfehselkksellLpskevTtieekenIdfkPskeil...sappedeaelt 374 +Tpil a+gvpl+++gl+pr++dld+l+r+efle+++++d++ry+fehs +++lLp+ ++T+i e++nIdfkP+ e l ++pp++e+++t Chr1_5 4962625 LTPILEACGVPLKEPGLAPRMMDLDHLRRCEFLEFDMAGDFHRYRFEHSR--IANILLPCIDATRILEGRNIDFKPALEDLyfeGSPPTEEVSHT 4962717 ************************************************95..699**************************************** PP ATHILA 375 eeaeeedvdeededeeaelekfdtsqyhFeehappareskslsevhkklsklqkwckkqdkllkkllk 442 ++a++edvde+d+++eae fdts+yhF+e +pp+reskslse+h+++sklqkw kk+dk +l k Chr1_5 4962718 KGATTEDVDETDDINEAE---FDTSMYHFSELIPPSRESKSLSEAHRNNSKLQKWYKKHDKFGGRLRK 4962782 ******************...***************************************97555544 PP == domain 5 score: 52.0 bits; conditional E-value: 4.8e-17 ATHILA 407 appareskslsevhkklsklqkwckkqdkllkkllkkikklkkklkssssqt 458 +ppareskslse+hk++sklqkwckkqdkll+k++k+ik+l++kl++sss+t Chr1_5 5120040 VPPARESKSLSEAHKNNSKLQKWCKKQDKLLAKCFKTIKFLTDKLSCSSSTT 5120091 8************************************************986 PP == domain 6 score: 261.6 bits; conditional E-value: 1.2e-80 ATHILA 1 trreeiargkrvveseeevieEdvev..eyepepvrrrtkelkkkdeltpeeYykllkelefegTryphketlaeLglledvdylfkkakletfm 93 +rreei rgkr++++++e+++E++e+ ey pe++r++tk+l+k+d+lt +Yyk lk+++f+gTryph+et+aeLg+ledv+ lf+k+++ t+m Chr1_5 5186103 RRREEISRGKRAMTENHELVDEEIEDdaEYIPEQTRKTTKSLMKEDKLTLGDYYKALKRNSFWGTRYPHPETMAELGILEDVQLLFEKCHMTTLM 5186197 69************************9******************************************************************** PP ATHILA 94 sypyeaykeetveflstlelelyqesedrekeeeglGyitFkvkgveyslsikqleeifgFpskkgikpkfdkeeLksLwatiasklplnsarsK 188 s py++y++et++fls+l++el++++ + e++eeglGy +F++++++y + ik+le++fgFps++g+k +f++eeLksLw ti+ +nsarsK Chr1_5 5186198 SHPYPTYEDETLQFLSSLQVELFEGLSAAELREEGLGYSSFTIDDRDYIMAIKTLESMFGFPSGTGTKLRFSQEELKSLWNTIGDTTSFNSARSK 5186292 *********************************************************************************************** PP ATHILA 189 snqirspvirylq 201 sn+ir+p+iry++ Chr1_5 5186293 SNSIRNPAIRYFR 5186305 ***********97 PP == domain 7 score: 282.6 bits; conditional E-value: 5.3e-87 ATHILA 181 plnsarsKsnqirspvirylqrsiAnvlfsrestgtvtnselelldqaLkeiLrrtkdgrklkgdlndtslsvvLldhLlsYreyaatikkklrG 275 ++ +r Ksn irspv+ry+++s+A++lf+re++gt+ n+elel+++aL+e+L+ t+dg++l+gd++d+ +s++L++hLlsYr++a+++kk+ G Chr1_5 5386605 FILYSRTKSNEIRSPVVRYFHKSLASALFARERNGTFVNGELELMETALQELLGLTSDGTVLAGDQTDAWVSFYLIEHLLSYRGWAKGLKKP--G 5386697 56679***************************************************************************************..* PP ATHILA 276 slcvGGvvTpiliavgvplsskglepraidldylkrkeflelkasddayrykfehselkksellLpskevTtieekenIdfkPskeilsappede 370 +++vGGvvTpil+a++vpl+sk + pr+id+++l + +++ +++++ +y+y+ +h++ ++s +lLp++++T i+++ nI+f+P+ e+l de Chr1_5 5386698 RMVVGGVVTPILRACNVPLHSKPIPPRWIDMQHLINFKSFWSQQKNGLYKYRIDHPTERQSIFLLPNPASTLIRDGGNIEFCPPVENL-YTSSDE 5386791 ****************************************************************************************.778899 PP ATHILA 371 aelteeaeeedvdeededeeae..lekfdtsqyhFeehappareskslsevhkklsklqkwckkqdkllkkllkkikk 446 a +e+ ++++++ + +d+eae +++t+q++Fee+ p + ++s +e+hk+l+ lq wck++dk+l+ l kk ++ Chr1_5 5386792 AVPMEGVNDDEAPIHHSDNEAEpmDVSYATQQFYFEEYSAPRQSKDS-KEIHKRLGFLQSWCKFHDKALATLNKKFNN 5386868 99999999999987777777772145689************999999.**************************9876 PP == domain 8 score: 512.8 bits; conditional E-value: 7.8e-157 ATHILA 2 rreeiargkrvveseeevieEdvev.....eyepepvrrrtkelkkkdeltpeeYykllkelefegTryphketlaeLglledvdylfkkaklet 91 ++ +i rgk+ v ++ e+++Ed + e+ + ++ l++++ t +eYykllk++ef+gTryph+et+++Lg+++dv+y+fk+++l++ Chr1_5 5402617 NKSDITRGKKPVGRRLELVDEDSDEemaspEEDDQTEKGGNDDLESEKCATRNEYYKLLKRNEFLGTRYPHPETMERLGIYDDVNYIFKQCSLNI 5402711 6789*****************9998545543333344455667899999********************************************** PP ATHILA 92 fmsypyeaykeetveflstlelelyqesedrekeeeg.lGyitFkvkgveyslsikqleeifgFpskkgikpkfdkeeLksLwatiasklplnsa 185 +m++p+e+y+eet++fls++el ly+es+d+e++ +g lGy++F+v++ve++l+i++le ++gFps+k+++++fdk+ L+s+wat++sk ++ + Chr1_5 5402712 HMFRPMEGYEEETIQFLSSVELFLYGESKDDEIRPDGsLGYLEFCVYDVEFRLPIEHLELMYGFPSGKDTNHRFDKRKLQSFWATLGSKQGFSFS 5402806 *********************************************************************************************** PP ATHILA 186 rsKsnqirspvirylqrsiAnvlfsrestgtvtnselelldqaLkeiLrrtkdgrklkgdlndtslsvvLldhLlsYreyaatikkklrGslcvG 280 r Ksn+irs v+ry++rs+A++lf+re++gt+ n+elel+++aL+e+L+ ++dg+ l+gd++dts+s+ L++hLlsYr++++++kk+ G+++vG Chr1_5 5402807 RTKSNKIRSLVVRYFHRSLASALFARERNGTFVNGELELMETALQELLGLASDGTGLAGDQTDTSVSFFLIEHLLSYRGWTKGLKKP--GRMVVG 5402899 ***************************************************************************************..****** PP ATHILA 281 GvvTpiliavgvplsskglepraidldylkrkeflelkasddayrykfehselkksellLpskevTtieekenIdfkPskeilsappedeaelte 375 GvvTpil+a +vpl+sk + pr+id+++l +++++ +++++ +y+y+f+h+++++s +lLp++++T+i++++nI+f+P+ e+l dea +e Chr1_5 5402900 GVVTPILRARNVPLHSKSIPPRWIDMQHLINSKSFWSQQKNGLYKYRFDHPTARQSIFLLPNPASTSIRDGDNIEFCPPMENL-YTSGDEAVPME 5402993 ***********************************************************************************.77788899999 PP ATHILA 376 eaeeedvdeededeeae..lekfdtsqyhFeehappareskslsevhkklsklqkwckkqdkllkkllkkikklkkklkssssqt 458 + ++++++ + +d+eae e+++t+q++Fee+ p + ++s +e+hk+l+ l wck++dk+l+ l kk ++l+ k++ sss+t Chr1_5 5402994 GVNDDEAPIHHSDNEAEpmDESYATQQFYFEEYSAPRQTKDS-KEIHKRLGFLLSWCKFHDKALAALNKKFNNLQLKISFSSSTT 5403077 9988888766666665522689********************.************************************999985 PP == domain 9 score: 85.0 bits; conditional E-value: 4.5e-27 ATHILA 44 deltpeeYykllkelefegTryphketlaeLglledvdylfkkakletfmsypyeaykeetveflstlelelyq 117 +e+ p+eYy++lkel+fegTryphket++eLg++ dv+yl++ a+l+tfms+++ +ykee++++++tl++++ Chr1_5 5441883 RESQPSEYYQYLKELKFEGTRYPHKETMQELGICGDVEYLMELANLATFMSCQCGGYKEESCQLFATLKVHFCL 5441956 57899******************************************************************974 PP >> RVT_1 Reverse transcriptase (RNA-dependent DNA polymerase) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 53.5 0.0 2.2e-17 5.9e-17 12 194 .. 825590 825814 .. 825580 825833 .. 0.90 2 ! 152.1 0.0 1.5e-47 4e-47 4 213 .. 2991613 2991868 .. 2991607 2991869 .. 0.93 3 ! 140.6 0.0 4.8e-44 1.3e-43 1 201 [. 4451226 4451456 .. 4451226 4451485 .. 0.96 4 ! 42.8 0.0 4.1e-14 1.1e-13 14 203 .. 4681186 4681332 .. 4681184 4681360 .. 0.90 5 ! 59.9 0.1 2.4e-19 6.4e-19 1 213 [. 4803494 4803653 .. 4803494 4803654 .. 0.95 6 ! 40.4 0.2 2.2e-13 5.8e-13 1 87 [. 4935902 4936001 .. 4935902 4936012 .. 0.95 7 ! 47.5 0.0 1.5e-15 4.1e-15 4 214 .] 4978779 4978937 .. 4978771 4978937 .. 0.95 8 ! 49.2 0.0 4.5e-16 1.2e-15 2 214 .] 5118393 5118553 .. 5118376 5118553 .. 0.94 9 ! 50.8 0.0 1.5e-16 4.1e-16 2 214 .] 5126652 5126812 .. 5126646 5126812 .. 0.95 10 ! 28.4 0.0 1.1e-09 2.9e-09 119 203 .. 5427492 5427608 .. 5427486 5427618 .. 0.86 11 ! 28.6 0.0 9e-10 2.4e-09 131 213 .. 5486054 5486168 .. 5486053 5486169 .. 0.94 12 ! 49.5 0.0 3.6e-16 9.8e-16 39 213 .. 5638452 5638587 .. 5638443 5638588 .. 0.91 13 ! 149.9 0.0 6.8e-47 1.9e-46 1 211 [. 5678070 5678330 .. 5678070 5678332 .. 0.93 14 ! 138.4 0.1 2.2e-43 6e-43 2 213 .. 6170301 6170558 .. 6170300 6170559 .. 0.93 15 ! 134.9 0.0 2.6e-42 7.1e-42 2 201 .. 6442840 6443070 .. 6442839 6443100 .. 0.94 16 ! 155.3 0.0 1.5e-48 4.1e-48 5 213 .. 7165947 7166200 .. 7165943 7166201 .. 0.96 Alignments for each domain: == domain 1 score: 53.5 bits; conditional E-value: 2.2e-17 RVT_1 12 isllsvddkilqkllakrLeeileplfsepshgfrpgrslht..ikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqrfirlikkllst 106 + l+sv +k++q++++ +Le +++p+fs+ sh r+gr+ + + ++n++s+s w+ +l l k d ++ ll+++++ ++ + l+++++ Chr1_5 825590 LVLPSVALKVVQEAIRIVLEVVFSPHFSKISHSCRSGRGRASalKYINNNISRSDWCFTLSLNKKLDVSVFENLLSVMEEKVEDSSLSILLRSMF-- 825684 449**************************************9*87777789999********************************999999999.. PP RVT_1 107 rsravylegek.geiyesrglpqGsvlSPllfnlflheldkflrkaf..........................................kprllyvr 160 a +l+ + g+++ glpq +vlS +l+n++l+++d+++ + r++++r Chr1_5 825685 --EARVLNL-EfGGFPKGHGLPQEGVLSRVLMNIYLDRFDHEFYRISmrhealgldsktdedspgsklrswfrrqageqglkstteqdvALRVYCCR 825778 ..2223333.338*******************************977************************************************** PP RVT_1 161 YaDDiligakskee.leeileeieeflke.lgleln 194 ++D i ++++++++ + +i +e fl++ l+l + Chr1_5 825779 FMDEIYFSVSGPKKvASDIRSEAIGFLRNsLHLDIT 825814 ***********5554999999999999987877765 PP == domain 2 score: 152.1 bits; conditional E-value: 1.5e-47 RVT_1 4 kg.tgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslht.........ikalnklsgs.kwllklDlkkaFdsiphdpllkkl 87 + ++++Rpisl++v +ki+ k ++ rL++ +++l+ +++ f pgr + +++ +k + + ++llklDl+ka+d+i++d l +l Chr1_5 2991613 PEkITQFRPISLCNVLFKIITKTMVERLKPLMTNLIGPAQASFIPGRVSTDnivlvqeavHSMRRKKGVKgWMLLKLDLEKAYDRIRWDYLEDTL 2991707 22689*****************************************99988********744444444446999********************* PP RVT_1 88 tafglpqrfirlikkllstrsravylegek.geiyesrglpqGsvlSPllfnlflheldkflrkaf.............kprllyvrYaDDilig 168 + g+p+ ++r+i+ ++s+ + ++ +++e+ +++++ rgl+qG++lSP+lf+l++++l++ +++ + +p+l ++++aDD++++ Chr1_5 2991708 ISAGFPEVWVRWIMCCVSGPEMSLLWNKERtDSFKPLRGLRQGDPLSPYLFVLCMERLCHLIERSIdnkqwkpislsqgGPKLSHICFADDLILF 2991802 ***************************9966**************************************************************** PP RVT_1 169 aks.keeleeileeieeflkelglelnpeKtkith....................ksdevkflGyv 213 a+ +++++ i + +e+f+ ++g++++ eK+ki+ ++d k+lG++ Chr1_5 2991803 AEAsVTQIRVIRKVLETFCIASGQKISLEKSKIFFsgnvsrdlskliseesgikaTKDLGKYLGMP 2991868 ***9******************************99999999999999888888888888888876 PP == domain 3 score: 140.6 bits; conditional E-value: 4.8e-44 RVT_1 1 ipkkg....tgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslht...........ikalnklsgskwllklDlkkaFdsiph 80 ipk+ +++ Rpisl++v +ki++k+l++rL++il++l+se +f +gr + + ++++ +g+ +++k+D++ka+d++++ Chr1_5 4451226 IPKTErptrMTELRPISLCNVGYKIISKILCQRLKKILPSLISETHSAFVEGRLISDniliaqemfhgLRTNPSCKGKFMAIKTDMSKAYDRVEW 4451320 6888888899*********************************************99***********7777789******************** PP RVT_1 81 dpllkkltafglpqrfirlikkllstrsravylegek.geiyesrglpqGsvlSPllfnlflheldkflrkaf.............kprllyvrY 161 +++ ++l+++g+++++i++i+ +++t++++v l+g+ g i ++rgl+qG++lSP+lf l+++ l ++rka +p++ ++++ Chr1_5 4451321 NFIEELLKKMGFCEKWISWIMWCITTVQYRVLLNGQPrGLIVPKRGLRQGDPLSPYLFILCTEVLIANIRKAEqeklitgikvataSPSVSHLLF 4451415 ************************************66*********************************99********************** PP RVT_1 162 aDDiligaks.keeleeileeieeflkelglelnpeKtkit 201 a D l+++k ke++ il +++++ + +g+ +n +K++i Chr1_5 4451416 ANDSLFFCKAnKEQCGVILGILKQYEAVSGQMINFSKSSIQ 4451456 **********8999************************986 PP == domain 4 score: 42.8 bits; conditional E-value: 4.1e-14 RVT_1 14 llsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqrfirlikkllstrs 108 +l++d++ l++++ k +p + ++++ l++l+g+++++k+Dl +++++ip+++++ taf + Chr1_5 4681186 CLCIDYRGLNRVTMK---------NRYPLPRIDEL--------LDQLRGATCFSKIDLTSGYHQIPIAEADIRKTAFRTR--------------- 4681248 6789***********.........***********........999******************************9999............... PP RVT_1 109 ravylegekgeiyesrglpqGsvlSPllfnlflheld.kflrkafkprllyvrYaDDiligakskeeleeileeieeflkelglelnpeKtkith 202 +++e+ ++p+G+ ++P+ f ++++ ++ +fl + +++ ++DDil+++ks ee+e +l+++ e l+e +l + +K++++ Chr1_5 4681249 ---------YGHFEFVVIPFGLTNAPTTFLRLMNSVF*EFLDE------FVIIFIDDILVYSKSLEEHEVHLRRVMEKLREQKLFAKLSKCSFLA 4681328 .........789*******************************......9******************************************996 PP RVT_1 203 ...k 203 + Chr1_5 4681329 egvS 4681332 4440 PP == domain 5 score: 59.9 bits; conditional E-value: 2.4e-19 RVT_1 1 ipkkgtgkyRp.isllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpq 94 ++kk+ ++R+ i d++ l+++++k ++p + ++++ l++l+g+++++k+Dl +++++ip+++++ taf + Chr1_5 4803494 VKKKD-RSFRLcI-----DYRGLNQVTVK---------NKYPLPRIDEL--------LDQLRGATCFSKIDLTSGYHQIPIAEADVRKTAFRTR- 4803564 68999.*****88.....***********.........***********........999******************************9999. PP RVT_1 95 rfirlikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflke. 188 +++ + ++p+G+ ++P+ f+++++ +++++ + +++ ++DDil+++ks+ee+e +l+++ e l+e Chr1_5 4803565 -----------------------YGHFKFVVMPFGLTNAPAVFMRLMNSVFQEFLDE-----FVIIFIDDILVYSKSPEEHEVHLRRVMEKLRE* 4803631 .......................789*****************************97.....6******************************** PP RVT_1 189 .lglelnpeKtkithksdevkflGyv 213 l +l +K++++ ++e+ flG+ Chr1_5 4803632 kLFAKL--SKCSFW--QREMGFLGHI 4803653 777776..69****..********85 PP == domain 6 score: 40.4 bits; conditional E-value: 2.2e-13 RVT_1 1 ipkkg....tgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslht.........ikalnklsgskwllklDlkkaFdsiphdp 82 ipk++ ++++Rpis++++++k+++kl+a+rL+ il++ + +f ++r l++ ++++++ ++++++k+D++kaFd +++++ Chr1_5 4935902 IPKNKevkqMKDFRPISCCNIIYKVFSKLIANRLKVILPDFITMTPSAFVKNRLLMEtvllaseivKDYHKDSVSARSAIKIDISKAFDFVQWPF 4935996 7888899999********************************************************9999999********************** PP RVT_1 83 llkkl 87 ll +l Chr1_5 4935997 LLATL 4936001 *9876 PP == domain 7 score: 47.5 bits; conditional E-value: 1.5e-15 RVT_1 4 kgtgkyRp.isllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqrfi 97 ++++ R+ i d+++l+++++k ++ p + ++++ l++l ++ ++ +lD + F++ip++p ++ t f++p Chr1_5 4978779 RTITRHRMcI-----DYRKLNAASRK---------DHFPLPFIDQM--------LERLANHPYYCFLDGYSRFFQIPIHPNDQEKTTFTCP---- 4978847 4567889977.....***********.........***********........899**********************************.... PP RVT_1 98 rlikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflkelgle 192 +++ ++++p+G+ ++P+ f++++ ++++l + ++ +++DD+ ++ + + + + l ++ + ++e +l Chr1_5 4978848 --------------------YGTFAYKRMPFGLCNAPATFQRCMTSIFSDLIEE-----MVEVFMDDFSVYGSFFSSCLSNLCRVLKRCEETNLV 4978917 ....................789*****************************96.....7*********************************** PP RVT_1 193 lnpeKtkithksdevkflGyvi 214 ln eK++++ +e +lG++i Chr1_5 4978918 LNLEKCHFM--VKEGIVLGHKI 4978937 *********..99999999986 PP == domain 8 score: 49.2 bits; conditional E-value: 4.5e-16 RVT_1 2 pkkgtgkyRp.isllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqr 95 p +++++ R+ i d+++l+++++k ++ p + ++++ l++l+++ ++ +lD ++F++ip++p ++ t f++p Chr1_5 5118393 PTRTITGHRMcI-----DYRKLNAASRK---------DHFPLPFIDHM--------LERLTNHPYYCFLDGYSGFFQIPIHPNDQEKTTFTCP-- 5118463 444478999988.....***********.........**99**99999........899**********************************.. PP RVT_1 96 firlikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflkelg 190 +++ ++++ +G+ ++P++f++++ ++++l + ++ +++DD+ ++ s + + l ++ + ++e + Chr1_5 5118464 ----------------------YGTFAYKRMSFGLGNAPAIFQRCMTSIFSDLIEE-----MVEVFMDDFSVYGPSFSSCLLNLGRVLTRCEETN 5118531 ......................789*****************************96.....7********************************* PP RVT_1 191 lelnpeKtkithksdevkflGyvi 214 l ln eK++++ ++ +lG++i Chr1_5 5118532 LILNWEKCHFM--VKKGIVLGHKI 5118553 ***********..99999999976 PP == domain 9 score: 50.8 bits; conditional E-value: 1.5e-16 RVT_1 2 pkkgtgkyRp.isllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqr 95 p +++++ R+ i d+++l+++++k ++ p + ++++ l++l ++ ++ +lD ++F++ip++p ++ t f++p Chr1_5 5126652 PTRTITGHRMcI-----DYRKLNAASRK---------DHFPLPFIDQM--------LERLANHPYYCFLDGYSGFFQIPIHPNDHEKTTFTCP-- 5126722 555578899978.....***********.........***********........899**********************************.. PP RVT_1 96 firlikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflkelg 190 +++ ++++p+G+ ++P+ f++++ ++++l + ++ +++DD+ ++ +s + + l ++ + ++e + Chr1_5 5126723 ----------------------YGTFAYKRMPFGLCNAPATFQRCMTSIFSDLIEE-----MVEVFMDDFSVYGSSFSSCLLNLCRVLKRCEETN 5126790 ......................789*****************************96.....7********************************* PP RVT_1 191 lelnpeKtkithksdevkflGyvi 214 l ln eK++++ +e +lG++i Chr1_5 5126791 LVLNWEKCHFM--VREGIVLGHKI 5126812 ***********..99999999976 PP == domain 10 score: 28.4 bits; conditional E-value: 1.1e-09 RVT_1 119 eiyesrglpqGsvlSPllfnlflheldkflrkaf............kprllyvrYaDDiligaks.keeleeileeieeflkelglelnpeKtki 200 ++ +s+g++ G+ lSP+ ++++ + l+ +l++a+ + +l+++++aDDi+++ ++ l +i+ + e+++ + + +n +K++i Chr1_5 5427492 FFSSSCGIRKGCSLSPYFYVIINNVLSTMLNRAAvmkeigshpfckEIKLTHLSFADDIMVFMDGtLGSLCNIMIVVDEYAHISVFNINVSKSTI 5427586 57899***************************99*******************************7777************************** PP RVT_1 201 th...................k 203 + + Chr1_5 5427587 FDagrgkmtleigatsvglvvS 5427608 9755555555555555555555 PP == domain 11 score: 28.6 bits; conditional E-value: 9e-10 RVT_1 131 vlSPllfnlflheldkflrkaf............kprllyvrYaDDiligaks.keeleeileeieeflkelglelnpeKtkith.......... 202 lSP+lf+ +++ +++ +++a+ + l+ +++aDD+++++++ + +e i+++++ef+++ gl+ n eK +++ Chr1_5 5486054 ALSPYLFVSYMNVMSHLINQAAvnrtiayhpk*kSICLTQLCFADDLMVFVDGhARLVEGIIQKFQEFASKFGLKKNLEKPTVYFagildqigdh 5486148 79*******************************9999999*************6666************************99999999999999 PP RVT_1 203 .........ksdevkflGyv 213 + +v++lG++ Chr1_5 5486149 itsnflfetGQLPVRYLGLP 5486168 99999999999999999986 PP == domain 12 score: 49.5 bits; conditional E-value: 3.6e-16 RVT_1 39 sepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqrfirlikkllstrsravylegekgeiyesrglpqGsvlS 133 ++p + ++++ l++l+g+++++k+Dl ++++ p+++++ taf + +++e+ ++p+G+ ++ Chr1_5 5638452 KYPLPRIDEL--------LDQLRGATCFSKIDLTPGYHQFPIAEADVRKTAFRTR------------------------YGHFEFVVMPFGLTNA 5638514 4444445555........889******************************9999........................789************* PP RVT_1 134 PllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflkelglelnpeKtkithksdevkflGyv 213 P+ ++++++ +++++ + +++ ++DDil+++ks+ee+e +l+++ e l+e +l + K++++ ++e++flG+ Chr1_5 5638515 PTALMRLMNSVFQEFLDE-----FVIIFIDDILVYFKSPEEHEVHLRRVMEKLREQKLFAKLGKCSFW--QREMDFLGHI 5638587 ****************97.....6********************************************..********85 PP == domain 13 score: 149.9 bits; conditional E-value: 6.8e-47 RVT_1 1 ipkkg....tgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslht...........ikalnklsgskwllklDlkkaFdsiph 80 ipk + ++yRpi+l++v +ki++k+l++rL+ +l++++s+++ +f pgr + + +k +++s++ +++k+D++ka+d++++ Chr1_5 5678070 IPKINnpltLSGYRPIALCNVLYKIISKCLVNRLKVHLNSIVSDSQAAFIPGRIISDnvmiadevmhsLKVRKRVSKTYMAVKTDVSKAYDRVEW 5678164 67777788899********************************************99***********777789********************* PP RVT_1 81 dpllkkltafglpqrfirlikkllstrsravylegek.geiyesrglpqGsvlSPllfnlflheldkflrkaf.............kprllyvrY 161 d+l ++++fg+++++i++i+ +++++++v ++g+ g+i+++rg+ qG++lSP+lf l+ + l++ +++++ p ++++++ Chr1_5 5678165 DFLETTMRLFGFCDKWISWIMVAVKSVHYSVLINGSPhGYIKPTRGICQGDPLSPYLFILCGDILSHLIKRKAasgelqgvcigngVPAITHLQF 5678259 ************************************55*********************************99********************** PP RVT_1 162 aDDiligaks.keeleeileeieeflkelglelnpeKtkith....................ksdevkflG 211 aDD l++++ ++++++++ + + lg+++n +K+ it ++ + k+lG Chr1_5 5678260 ADDSLFFCQAnAKNCQALKDVFDVYEYYLGQKINVQKSMITFgsrvygstqarlknilnipnQGGGGKYLG 5678330 **********777799999999999999*************877777777777777777777777777777 PP == domain 14 score: 138.4 bits; conditional E-value: 2.2e-43 RVT_1 2 pkkg....tgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslht................ikalnklsgskwllklDlkkaFd 76 pkk +++yRpis+++v++k+++k++a+rL+ l++ + ++ +f + r l++ + ++++++k+D++kaFd Chr1_5 6170301 PKKLeakeMKDYRPISCCNVIYKVISKIIANRLKVLLPEFVAGNQSAFVKDRLLIEnlllatelvkdyykd*V-------STRCAIKIDISKAFD 6170388 666666678*************************************************999776643333332.......4599*********** PP RVT_1 77 siphdpllkkltafglpqrfirlikkllstrsravylegek.geiyesrglpqGsvlSPllfnlflheldkflrkaf............kprlly 158 s+++++ll++l+a+++p fi+++k +++t+s++v+++g g++++ rgl+qG+ lSP+lf++ ++ l+k+l ka+ + +l++ Chr1_5 6170389 SVQLAFLLNVLLAMNFPAVFIHWLKLCITTASFSVQVNGDLaGYFQSARGLRQGCSLSPYLFVISMDVLSKMLDKAAgahkfgfhphcqRLKLTH 6170483 ****************************************88***************************************************** PP RVT_1 159 vrYaDDiligakskeele.eileeieeflkelglelnpeKtkith...................ksdevkflGyv 213 +++aDD+++++++k i++ + ef k +gl++++eK+++++ + +v++lG++ Chr1_5 6170484 LSFADDLMVLTDGKVRSI*GIVKVFDEFYKYSGLKISMEKSTMYMagvsplvkaeiaalfpfdiGQLPVRYLGLP 6170558 *************88877778999999*****************9*******************9*******986 PP == domain 15 score: 134.9 bits; conditional E-value: 2.6e-42 RVT_1 2 pkkg....tgkyRpisll....svddkilqkllakrLeeileplfsepshgfrpgrslht.........ikalnklsgskwllklDlkkaFdsip 79 pk + ++++Rpis++ + +k++ +ll++rL+ l++++s+++ +f pgr l + + ++++ + +lk+Dl+kaFdsi+ Chr1_5 6442840 PKITnaskMNDFRPISCNdfgpITLYKVIARLLTNRLQCLLSQVISPFQSAFLPGRFLAEnvllatelvQGYNRQNIDPRGMLKVDLRKAFDSIR 6442934 55555667899****9986665789*******************************************97777788999**************** PP RVT_1 80 hdpllkkltafglpqrfirlikkllstrsravylegek.geiyesrglpqGsvlSPllfnlflheldkflrkaf............kprllyvrY 161 +d++++ l+a+g+p+rf+ +i +++st +++v ++g++ g+++++rgl+qG +lSP+lf+l+++ +++ l+++f ++ ++ + Chr1_5 6442935 WDFIISALKAIGIPDRFVYWITQCISTPTFSVCVNGNTgGFFKSTRGLRQGNPLSPFLFVLAMEVFSSLLNSRFqagyihyhpktsPLSISHLMF 6443029 *************************************88**********************************************999******* PP RVT_1 162 aDDiligaks.keeleeileeieeflkelglelnpeKtkit 201 aDDi++++++ + l i e++e+f+ +gl ln eKt+++ Chr1_5 6443030 ADDIMVFFDGgSSSLHGISEALEDFAFWSGLVLNREKTHLY 6443070 **********9999************************987 PP == domain 16 score: 155.3 bits; conditional E-value: 1.5e-48 RVT_1 5 g....tgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslht.........ikalnklsgskwllklDlkkaFdsiphdpllkk 86 t+++Rpis+l++ +k++ +ll++rL++ l+ ++s ++ +f pgrsl + + +++ + + +lk+DlkkaFds+++++ + Chr1_5 7165947 VnptcTSDFRPISCLNTLYKVIARLLTDRLQRLLSGVISSAQSAFLPGRSLAEnvllatdlvHGYNWSNISPRGMLKVDLKKAFDSVRWEFVIAA 7166041 4445789******************************************************99998889999*********************** PP RVT_1 87 ltafglpqrfirlikkllstrsravylegek.geiyesrglpqGsvlSPllfnlflheldkflrkaf............kprllyvrYaDDilig 168 l+a+ +p++fi++i++++st ++ v ++g + g++++++gl+qG++lSP+lf+l+++++++ l++++ + ++ ++ +aDD++i+ Chr1_5 7166042 LRALAIPEKFINWISQCISTPTFTVSINGGNgGFFKSTKGLRQGDPLSPYLFVLAMEAFSNLLHSRYesglihyhpkasNLSISHLMFADDVMIF 7166136 *****************************988*************************************************************** PP RVT_1 169 aks.keeleeileeieeflkelglelnpeKtkith..................ksdevkflGyv 213 +++ l i+e++ +f++ +gl++n++K++++ + ++++lG++ Chr1_5 7166137 FDGgSFSLHGICETLDDFASWSGLKVNKDKSHLYLaglnqlesnanaaygfpiGTLPIRYLGLP 7166200 ***7777***************************9****************99999****9986 PP >> rve Integrase core domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 95.7 0.0 2.2e-30 5.9e-30 2 119 .. 2966618 2966736 .. 2966617 2966737 .. 0.98 2 ! 78.6 0.0 4.2e-25 1.1e-24 4 118 .. 3060140 3060253 .. 3060137 3060255 .. 0.96 3 ! 33.5 0.0 4.1e-11 1.1e-10 3 90 .. 3820437 3820522 .. 3820435 3820526 .. 0.88 4 ! 85.8 0.0 2.5e-27 6.9e-27 3 117 .. 4523805 4523917 .. 4523803 4523919 .. 0.97 5 ! 79.7 0.1 2e-25 5.5e-25 4 119 .. 4595305 4595420 .. 4595302 4595421 .. 0.96 6 ! 93.4 0.0 1.1e-29 3.1e-29 4 119 .. 4618095 4618211 .. 4618092 4618212 .. 0.97 7 ! 48.2 0.0 1.2e-15 3.2e-15 60 118 .. 4624275 4624333 .. 4624273 4624335 .. 0.96 8 ! 43.7 0.2 2.8e-14 7.4e-14 3 119 .. 4684862 4684980 .. 4684860 4684981 .. 0.89 9 ! 52.1 0.0 7e-17 1.9e-16 3 119 .. 4804019 4804133 .. 4804017 4804134 .. 0.94 10 ! 72.4 0.0 3.6e-23 9.6e-23 6 118 .. 4866359 4866468 .. 4866355 4866470 .. 0.95 11 ! 41.5 0.0 1.4e-13 3.8e-13 6 116 .. 4938041 4938152 .. 4938036 4938154 .. 0.86 12 ! 53.5 0.0 2.5e-17 6.9e-17 3 106 .. 5070320 5070421 .. 5070318 5070422 .. 0.90 13 ! 68.8 0.0 4.6e-22 1.2e-21 6 118 .. 5127198 5127307 .. 5127194 5127309 .. 0.94 14 ! 55.5 0.0 6.2e-18 1.7e-17 2 118 .. 5295985 5296100 .. 5295984 5296102 .. 0.97 15 ! 40.3 0.1 3.2e-13 8.7e-13 9 119 .. 5638927 5639035 .. 5638925 5639036 .. 0.94 16 ! 37.0 0.0 3.3e-12 8.8e-12 7 116 .. 5731254 5731364 .. 5731252 5731365 .. 0.84 17 ! 90.6 0.0 8e-29 2.2e-28 3 116 .. 6425565 6425679 .. 6425563 6425681 .. 0.98 18 ! 74.2 0.1 9.9e-24 2.7e-23 3 117 .. 7018857 7018969 .. 7018856 7018971 .. 0.97 19 ! 92.9 0.0 1.6e-29 4.4e-29 2 119 .. 8138484 8138602 .. 8138483 8138603 .. 0.98 Alignments for each domain: == domain 1 score: 95.7 bits; conditional E-value: 2.2e-30 rve 2 atrpgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirh 95 a++p+el+++Dv+ p++++s g+ +y+l +iddfsr++++++lk +s+++++++ +++ ve+ g +k+++sD+g eftsk+f ++++++gir Chr1_5 2966618 AQKPLELIHTDVCgPIKPKSLGKSNYFLLFIDDFSRKTWVYFLKEKSEVFEIFKKFKAHVEKESGLVIKTMRSDRGGEFTSKEFLKYCEDNGIRR 2966712 679******************************************************************************************** PP rve 96 kftrpyrpqdngkvErfnrtlkee 119 + t p++pq+ng++Er+nrt+ e+ Chr1_5 2966713 QLTVPRSPQQNGVAERKNRTILEM 2966736 *********************986 PP == domain 2 score: 78.6 bits; conditional E-value: 4.2e-25 rve 4 rpgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkf 97 +el+++D + p+r s g +y+lt++dd+sr ++ + l+++++a ++ + ++ver+ +k+++sDngsef +++++++ gi h++ Chr1_5 3060140 FAFELVHCDLWgPYRTTSICGSRYFLTLVDDYSRAVWLYLLPSKQEAPKHLKNFIALVERQYTTNIKMIRSDNGSEFI--CLSDFFAQKGIIHET 3060232 5789***********************************************99999**********************..59************* PP rve 98 trpyrpqdngkvErfnrtlke 118 +++++pq+ng vEr++r++ + Chr1_5 3060233 SCVGTPQQNGRVERKHRHILN 3060253 ******************975 PP == domain 3 score: 33.5 bits; conditional E-value: 4.1e-11 rve 3 trpgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallke 90 + p +w++D++ p+ ++++g ++ll+++d fs+++ a +++ ++ +v +++++ + r+g p ++++Dng++f sk+fe+l+ + Chr1_5 3820437 PYPYMKWSMDIIgPLHVSTRG-VRFLLVLTDYFSKWVKAATYSNI-TQVQVRAFIWKEIICRHGL-PYEIVTDNGPQFISKHFESLCVR 3820522 568889**********99999.9**********************.6666666666677777777.********************976 PP == domain 4 score: 85.8 bits; conditional E-value: 2.5e-27 rve 3 trpgelwqiDvtpgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkf 97 + p+e + +Dv++ +i s+++++y l+++d ++r+++ ++l+++s++++++ +++++ve+r++ ++++l+sDng ef a++++l ++gi h + Chr1_5 4523805 SSPLEYIFTDVWTSPIISHDNYKYYLVLVDHYTRYTWLYPLQQKSQVKATFIAFKALVENRFQAKIRTLYSDNGGEFI--ALRDFLVSNGISHLT 4523897 789***************************************************************************..9************** PP rve 98 trpyrpqdngkvErfnrtlk 117 ++p++p+ ng+ Er++r++ Chr1_5 4523898 SPPHTPEHNGLSERKHRHIV 4523917 ******************96 PP == domain 5 score: 79.7 bits; conditional E-value: 2e-25 rve 4 rpgelwqiDvtpgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkft 98 +e++++D ++ +ips g +y + ++d fs+f ++++l+++s++++ + +++ v+ ++++++k+l++Dng e+++++f ++++++gi+++f+ Chr1_5 4595305 STFEIIHSDLWTSPIPSLSGIRYYVLFLDQFSHFLWIYPLRNKSDVFSKFLQFHTYVKTQFEKHIKSLQCDNGGEYKNSQFHDFFAKHGIQFRFS 4595399 5689******************************************************************************************* PP rve 99 rpyrpqdngkvErfnrtlkee 119 +py++q+ng Er++rt ++ Chr1_5 4595400 CPYTSQQNGRLERMIRTHQQC 4595420 *****************8875 PP == domain 6 score: 93.4 bits; conditional E-value: 1.1e-29 rve 4 rpgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkf 97 + +el+++D + p+ +++ g++y++++idd+sr+ +++ lk +s+a+ ++ ++ +ve+ g +++++++D+g ef+s++f +l++e gi+ + Chr1_5 4618095 KILELVHGDLCgPITPSTAAGNRYVFVLIDDHSRYMWTILLKEKSEAFNKFRKFKSLVEQESGARIQTFRTDRGGEFVSQEFNNLCQESGIKRHL 4618189 6689******************************************************************************************* PP rve 98 trpyrpqdngkvErfnrtlkee 119 t+py+pq+ng+vEr nrtl e+ Chr1_5 4618190 TAPYTPQQNGVVERRNRTLLEM 4618211 *******************986 PP == domain 7 score: 48.2 bits; conditional E-value: 1.2e-15 rve 60 verrggvepkrllsDngseftskafeallkelgirhkftrpyrpqdngkvErfnrtlke 118 v+++++ ++k+l+s ng e+ts++f+++l+++gi h++++py pq+ng++Er+nr+l+e Chr1_5 4624275 VTNYFNAKIKVLRSGNGGEYTSHKFKEYLAKHGIIHQTSCPYIPQQNGVAERKNRHLME 4624333 78899999*************************************************97 PP == domain 8 score: 43.7 bits; conditional E-value: 2.8e-14 rve 3 trpgelwqiDvt...pgrip.skggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgi 93 +++++ +++D + +p s + +y++ ++dd+sr++++ +l ++++a+t + ++++ve + +++ k+l++Dng e ++++f + k+ i Chr1_5 4684862 KEKLDYVHSDLWgssN--VPySLSKCQYFISFTDDWSRKVWINFLNTKDEAFTSFTEWKKMVETQSERKLKKLRTDNGLESCNQKFDGFYKKEEI 4684954 5678889999998542..331233369******************************************************************** PP rve 94 rhkftrpyrp.qdngkvErfnrtlkee 119 ++t++y+p ng++Er nrt++++ Chr1_5 4684955 VRHRTCTYTP*K-NGVAERLNRTIMNK 4684980 *******99988.88*********986 PP == domain 9 score: 52.1 bits; conditional E-value: 7e-17 rve 3 trpgelwqiDvtpgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkf 97 + +++ +++D+++g s+ k +++++d+ ++ +++ a+++++ a+++a+ ++ + + +gv p +++sD+ s fts ++a+ +e+g+++++ Chr1_5 4804019 EWKWDFITMDFVVGLLVSRT-KDAIWVIVDRLTKSAHFLAIRKTDGAAVLAKKYVNEIVKLHGV-PVSIVSDRDSKFTSGFWRAFQAEMGTKVQM 4804111 56788899****88867777.8******************************************.****************************** PP rve 98 trpyrpqdngkvErfnrtlkee 119 +++y+pq g+ Er+++tl+++ Chr1_5 4804112 STAYHPQRDGQSERTIQTLEDM 4804133 *******************997 PP == domain 10 score: 72.4 bits; conditional E-value: 3.6e-23 rve 6 gelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkftr 99 +++w iD+ p++ +s+g ++y+l+a+d s+++ a+a ++ +a++v++l+++++ r+gv p++++sD g+ f +k fe+llk++g++hk ++ Chr1_5 4866359 FDVWGIDFMgPFP-SSYG-NKYILVAVDYVSKWVEAIASPTN-DAKVVLKLFKTIIFPRFGV-PRVVISDGGKHFINKVFENLLKKHGVKHKVAT 4866449 789******9999.6666.8**********************.*******************.******************************** PP rve 100 pyrpqdngkvErfnrtlke 118 py+pq+ g+vE +nr +k+ Chr1_5 4866450 PYNPQTSGQVEISNREIKT 4866468 ****************997 PP == domain 11 score: 41.5 bits; conditional E-value: 1.4e-13 rve 6 gelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggve.pkrllsDngseftskafeallkelgirhkft 98 +++ ++D++ p+ +p + ++y+ ++id+ +r+ +++ l+++++a++ + ++ +++ +k+++ Dn+ efts+af +++ ++gi++++ Chr1_5 4938041 LSRSHGDICgPIHPPCGP-FRYFMVLIDASTRWSHVCLLTTRNTAFARFISQIIRLKTQFPDYaIKKVRLDNAGEFTSQAFNDYCVSMGIDIEHP 4938134 677899***999966555.***********************7776666655555666666557******************************* PP rve 99 rpyrpqdngkvErfnrtl 116 p+ +ng++E+ ++ l Chr1_5 4938135 LPHVHKQNGMAESLIKRL 4938152 *************99877 PP == domain 12 score: 53.5 bits; conditional E-value: 2.5e-17 rve 3 trpgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhk 96 + p+ +w++D++ p+ s g +yll+++d fs++i aea+ + +++++ + +++++++r+g p ++++Dng +f ++fea+++++gi+++ Chr1_5 5070320 PYPFMRWSMDIIgPLH-RSTRGVQYLLVLTDYFSKWIEAEAYVNIKDSAVKTFIWKNIICRHGV--PYEIVTDNGLQFILHEFEAFCSDWGIKVS 5070411 67999*******9888.55555***********************8888888888877777777..***************************** PP rve 97 ftrpyrpqdn 106 +++ + pq n Chr1_5 5070412 YSTLRYPQGN 5070421 ********98 PP == domain 13 score: 68.8 bits; conditional E-value: 4.6e-22 rve 6 gelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkftr 99 +++w iD+ + +s+g ++y+l+a+d s+++ a+a ++ +a +v++l+++++ r+gv p++++sD g+ f +k fe+llk++g++hk ++ Chr1_5 5127198 FDVWGIDFMgLFL-SSYG-NKYILVAVDYVSKWVEAIASPTN-DARVVLKLFKTIIFPRFGV-PRIVISDGGKHFINKVFENLLKKHGVKHKVAT 5127288 789******7555.6777.9**********************.*******************.******************************** PP rve 100 pyrpqdngkvErfnrtlke 118 py+pq+ g+vE +nr +k+ Chr1_5 5127289 PYHPQTSGQVEISNREIKA 5127307 ****************997 PP == domain 14 score: 55.5 bits; conditional E-value: 6.2e-18 rve 2 atrpgelwqiDvtpgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhk 96 +t+p+ +++D++ g + ++ g+ +++++d+fs++++++++k++++a tva l+ r ++r +g p ++++D+ + f+s+ +++l k l + ++ Chr1_5 5295985 PTQPWTDVSMDFVLGLPRTQRGNDSIFVVVDRFSKMAHFIPCKKTTDAVTVALLFFREIYRLHGL-PTSIVCDRDTRFVSHFWRSLWKLLCTSLD 5296078 689**********999899999*******************************************.***************************** PP rve 97 ftrpyrpqdngkvErfnrtlke 118 ++++y+pq+ g+ E +nr l + Chr1_5 5296079 MSTAYHPQSDGQTEVSNRALGD 5296100 ******************9875 PP == domain 15 score: 40.3 bits; conditional E-value: 3.2e-13 rve 9 wqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkftrpyr 102 +++D++ +r+++ k +++++d+ ++ +++ a+++++ a+++ + + + + +gv p ++ls + s fts+ ++a+ e+g++++++++y+ Chr1_5 5638927 ITMDFVvGLRVSRT--KDAIWVIVDRLTKSAHFLAIRKTDGAAVLPKKYVSEIVKLHGV-PVSILSHRDSKFTSAFWRAFQVEMGTKVQMSTAYH 5639018 689***66665544..5******************************************.*********************************** PP rve 103 pqdngkvErfnrtlkee 119 pq+ g+ Er+++tl+++ Chr1_5 5639019 PQTDGQSERTIQTLEDM 5639035 **************997 PP == domain 16 score: 37.0 bits; conditional E-value: 3.3e-12 rve 7 elwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaet.vadlleraverrggvepkrllsDngseftskafeallkelgirhkftr 99 +++++D++ p+ +p + ++y+ ++id+ +++ +++ l+++++a++ ++ + r+ +++ + +k+++ Dn+ efts+af +++ ++gi++++ Chr1_5 5731254 SRIHGDICgPIHPPCGP-FRYFMVLIDASTGWSHVCLLTTRNTAFArFISQIIRLKAQFLDYAIKKVRLDNAGEFTSQAFNDYCVSMGIDVEHPV 5731347 799*****999966555.***********************4444414444444555555555******************************** PP rve 100 pyrpqdngkvErfnrtl 116 + +ng++E+ ++ l Chr1_5 5731348 SHVHAQNGMAESLIKRL 5731364 ************99877 PP == domain 17 score: 90.6 bits; conditional E-value: 8e-29 rve 3 trpgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhk 96 +p++++++D + p ++ s++g +y ++++dd+sr+ ++++l+++s+ +v+ ++++ve++ + ++k+++sD g ef+s+++++ l+e+gi h+ Chr1_5 6425565 LHPLDRIHCDLWgPSPVVSNQGLKYYAIFVDDYSRYSWFYPLHNKSEFLSVFISFQKLVENQLNTKIKVFQSDGGGEFVSNKLKTHLSEHGIHHR 6425659 69********************************************************************************************* PP rve 97 ftrpyrpqdngkvErfnrtl 116 ++py+pq+ng++Er++r+l Chr1_5 6425660 ISCPYTPQQNGLAERKHRHL 6425679 *******************9 PP == domain 18 score: 74.2 bits; conditional E-value: 9.9e-24 rve 3 trpgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhk 96 ++ +el++iD++ p+++p++++++y+lt++ddfsr ++++ lk++s++ tv+ + ++ve + ++ +++sDn+ e++ f +l+++ gi+ + Chr1_5 7018857 EKAFELVHIDTWgPFSVPTVDSYRYFLTIVDDFSRATWIYLLKQKSDVLTVFPSFLKMVETQYHTKVCSVRSDNAHELK---FNELFAKEGIKAD 7018948 5789************************************************************************999...************* PP rve 97 ftrpyrpqdngkvErfnrtlk 117 + +p +p++n +vEr++++l Chr1_5 7018949 HPCPETPEQNFVVERKHQHLL 7018969 *******************97 PP == domain 19 score: 92.9 bits; conditional E-value: 1.6e-29 rve 2 atrpgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirh 95 a++++el+++D + p+ +++k g++y++++iddf r+ +++ lk +++a++ ++ ++ +ve+ +++++++D+g ef+s++f +++++ gi+ Chr1_5 8138484 ASKKLELIHGDLCvPITPSTKAGNKYIFALIDDFFRYMWTILLKEKADAFQKFCNFKSLVEKESSTRVQTFRTDRGGEFVSHEFNSFCEKSGITR 8138578 67899****************************************************************************************** PP rve 96 kftrpyrpqdngkvErfnrtlkee 119 + t+py+pq+ng+vEr nrt++e+ Chr1_5 8138579 HLTAPYTPQQNGVVERRNRTMMEM 8138602 *********************986 PP >> Transposase_21 Transposase family tnp2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 299.7 0.0 1e-92 2.7e-92 2 220 .. 3858082 3858302 .. 3858081 3858306 .. 0.97 2 ! 284.5 0.0 4.5e-88 1.2e-87 18 220 .. 5276825 5277029 .. 5276824 5277033 .. 0.97 3 ! 81.8 0.0 4e-26 1.1e-25 83 186 .. 5455588 5455692 .. 5455582 5455702 .. 0.95 4 ! 202.0 0.4 7.2e-63 2e-62 2 133 .. 6084156 6084287 .. 6084155 6084291 .. 0.98 Alignments for each domain: == domain 1 score: 299.7 bits; conditional E-value: 1e-92 Transposase_21 2 emrwhkeerkkdgklrhpaDgeaWkkfdekypeFakdaRnvrlgLstDGfnPfgklsssyslWpvllvpynlppelcmkeenillsl 88 +mrwh+e+++k+g+++hp+D+++W+ f+ +peFa+++Rn++lgL+tDGfnPfg+ s+++slWpv+l+pynlpp +cm++e+++l++ Chr1_5 3858082 AMRWHAEHQSKEGEMNHPSDAAKWRYFQGLHPEFAEEPRNIYLGLCTDGFNPFGM-SRNHSLWPVILTPYNLPPGMCMNTEYLFLTI 3858167 7****************************************************87.888**************************** PP Transposase_21 89 lipGpkqpgkdidvflepLieeLkeLweeGvetyDaskkenFtlraallwtinDlpalgnlsgqstkGklacpiCleetkskrlkkg 175 l +Gp++p++++dvfl+pLieeLkeLw++Gv++yD+s ++nF+l+a+llwti+D+pa+++lsg++t+Gkl+cp+C+e+tks++l +g Chr1_5 3858168 LNSGPNHPRASLDVFLQPLIEELKELWSTGVDAYDVSLSQNFNLKAVLLWTISDFPAYNMLSGWTTHGKLSCPVCMESTKSFYLPNG 3858254 *************************************************************************************** PP Transposase_21 176 kkvv.ylghrrflpakhpfrknkksfdgk..eeeeeapkelsgeevle 220 +k++ + h rflp+ hp r+n+k+f + +++e +p++l+ge+v+ Chr1_5 3858255 RKTC*FDCHCRFLPHGHPSRRNRKDFLKGrdASSEYPPESLTGEQVYY 3858302 **************************988667788899*****99975 PP == domain 2 score: 284.5 bits; conditional E-value: 4.5e-88 Transposase_21 18 hpaDgeaWkkfdekypeFakdaRnvrlgLstDGfnPfgklsssyslWpvllvpynlppelcmkeenillsllipGpkqpgkdidvfl 104 +p+D+++W+ f+e +p+Fa+++Rnv+lgL+tDGfnPfg+ s+++slWpv+l+pynlpp +cm++e+++l++l +Gp++p++++dvfl Chr1_5 5276825 NPSDAAEWRYFQELHPRFAEEPRNVYLGLCTDGFNPFGM-SRNHSLWPVILTPYNLPPGMCMNTEYLFLTILNSGPNHPRASLDVFL 5276910 69***********************************87.888******************************************** PP Transposase_21 105 epLieeLkeLweeGvetyDaskkenFtlraallwtinDlpalgnlsgqstkGklacpiCleetkskrlkkgkkvvylg.hrrflpak 190 +pLieeL+eLw++Gv++yD+s ++nF+l+++llwti+D+pa+++ls ++t+Gkl+cpiC+e+tks++l +g+k+++++ hrrflp+ Chr1_5 5276911 QPLIEELQELWSTGVDAYDVSLSQNFNLKVVLLWTISDFPAYSMLSRWTTHGKLSCPICMESTKSFYLPNGRKTCWFNcHRRFLPHG 5276997 *************************************************************************************** PP Transposase_21 191 hpfrknkksfdgk..eeeeeapkelsgeevle 220 hpfr+nkk+f + ++ e +p++l+ge+v+ Chr1_5 5276998 HPFRRNKKDFLKGrdASIEYPPESLTGEQVYY 5277029 **********98856677899******99975 PP == domain 3 score: 81.8 bits; conditional E-value: 4e-26 Transposase_21 83 nillsllipGpkqpgkdidvflepLieeLkeLweeGvetyDaskkenFtlraallw.tinDlpalgnlsgqstkGklacpiCleetk 168 + + s+l++Gp+ ++++dvfl+ Li+eL++Lw+eGv +yD+ ++ F + a+ l+ tin +pa+g+l g++t+G+l+cp+ +++ + Chr1_5 5455588 YQFQSILVHGPEYLRRSLDVFLQSLIHELQTLWSEGVVAYDVPLRNIFVMPAV-LM*TINNFPAYGMLYGWTTHGRLSCPYYQDTIN 5455673 56889*********************************************986.6899***************************** PP Transposase_21 169 skrlkkgkkvvylg.hrrf 186 +++lk+gkk ++++ hrrf Chr1_5 5455674 AFQLKHGKKSCWFDcHRRF 5455692 ******************9 PP == domain 4 score: 202.0 bits; conditional E-value: 7.2e-63 Transposase_21 2 emrwhkeerkkdgklrhpaDgeaWkkfdekypeFakdaRnvrlgLstDGfnPfgklsssyslWpvllvpynlppelcmkeenillsl 88 ++rwh ++ ++dg++rhp+D+ aW +++ k+p+Fa+++Rn+rlgLstDG+nPf+ ++++ys+Wpvllv+yn++p++cmk+eni+l+l Chr1_5 6084156 DLRWHFSNASDDGTMRHPVDSLAWAQVNYKWPQFAAEPRNLRLGLSTDGMNPFSIQNTKYSTWPVLLVNYNMAPTMCMKAENIMLTL 6084242 79************************************************************************************* PP Transposase_21 89 lipGpkqpgkdidvflepLieeLkeLweeGvetyDaskkenFtlr 133 lipGp++p+++idv+l+pLi++Lk+Lw++G+++yD++ ke+Ftlr Chr1_5 6084243 LIPGPTTPNNNIDVYLAPLIDDLKDLWSDGIQVYDSFLKESFTLR 6084287 ********************************************9 PP >> Plant_tran Plant transposon protein # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 67.6 0.4 1.1e-21 2.9e-21 137 211 .] 4592316 4592390 .. 4592312 4592390 .. 0.93 2 ! 156.5 0.0 6.4e-49 1.7e-48 85 209 .. 4692692 4692816 .. 4692679 4692817 .. 0.93 3 ! 202.9 0.0 4.2e-63 1.1e-62 3 193 .. 5439197 5439383 .. 5439195 5439383 .. 0.94 4 ! 377.4 0.0 1.7e-116 4.5e-116 1 211 [] 7260720 7260929 .. 7260720 7260929 .. 0.99 Alignments for each domain: == domain 1 score: 67.6 bits; conditional E-value: 1.1e-21 Plant_tran 137 lvksirlpqlekkklfaqkqeaarkdverafGvlqarfkivakparlw.ekedlakimkaciilhnmivederdld 211 +++si pq++k++lfa +q+a+r dve++fGvlq rf+iv++ + +k ++++im+aciil nmive+erd++ Chr1_5 4592316 FIRSISIPQSRKATLFASNQKACRIDVECSFGVLQPRFAIVKN-SVFI*DKIKISNIMQACIILNNMIVEEERDVY 4592390 99***************************************55.444599***********************985 PP == domain 2 score: 156.5 bits; conditional E-value: 6.4e-49 Plant_tran 85 pgsnndinvldrsplfadilkGeaprvkyvvnekqynlayyladGiypkwatlvksirlpqlekkklfaqkqe.aarkdverafGvlqarf 174 + + in+ld sp+f+dil+G+ap v+y+v++++y+l+yyl+d i pkwat+++si pq++k+ lfa++ + a+rkdverafGvlqarf Chr1_5 4692692 SKYLKRINILDCSPVFDDILRGRAPTVNYLVKGNEYHLGYYLTDEIDPKWATFIQSILVPQTRKASLFATT-Q*ACRKDVERAFGVLQARF 4692781 456788***************************************************************87.5559*************** PP Plant_tran 175 kivakparlwekedlakimkaciilhnmivederd 209 +iv++pa +w+k ++ i +aciilhnmivederd Chr1_5 4692782 AIVKNPALIWDKVKIGYITRACIILHNMIVEDERD 4692816 **********************************8 PP == domain 3 score: 202.9 bits; conditional E-value: 4.2e-63 Plant_tran 3 evfaarylraptaedver.llkigesrgfpgmlgsldcmh.wkwkncptawkg.qytrgdkksptiileavasydlwiw..haffglpgsn 88 +f+++yl++ t+ed++r l+ ige+rgfp+m+gs+dcmh wkn ptawkg +rg+ k pti+leavas+ + w haffg pgs+ Chr1_5 5439197 FLFGDEYLQKSTVEDIDR*LM-IGEIRGFPRMMGSIDCMH*E-WKNFPTAWKG*Y-ARGSGK-PTIVLEAVASQ--YHWi*HAFFGPPGSL 5439281 689**************9986.9****************884.69******9554.89*999.**********8..678799********* PP Plant_tran 89 ndinvldrsplfadilkGeaprvkyvvnekqynlayyladGiypkwatlvksirlpqlekkklfaqkqeaarkdverafGvlqarfkivak 179 ndin+ldrsp+ +dil+G+ap v+y+vn+++y+l+yyl+d iy kwa +++ i + +++ lfa++qea+rkdverafGvlqarf+i+++ Chr1_5 5439282 NDINILDRSPICDDILQGQAPTVNYLVNGNKYHLGYYLTDKIYLKWANFINPIPN---RQTSLFATTQEACRKDVERAFGVLQARFAIMKN 5439369 ***************************************************9965...5678***************************** PP Plant_tran 180 parlwekedlakim 193 pa +w+k ++++im Chr1_5 5439370 PAPIWDKVKIKNIM 5439383 *************9 PP == domain 4 score: 377.4 bits; conditional E-value: 1.7e-116 Plant_tran 1 ivevfaarylraptaedverllkigesrgfpgmlgsldcmhwkwkncptawkgqytrgdkksptiileavasydlwiwhaffglpgsnndi 91 ivevfa+rylr+p+a+dv+rll+igesrgfp+mlgsldcmhwkwkncptaw gqy+ g+++sptiileava+ydlwiwha+fglpgsnndi Chr1_5 7260720 IVEVFACRYLRSPDANDVARLLHIGESRGFPRMLGSLDCMHWKWKNCPTAWGGQYA-GRSRSPTIILEAVADYDLWIWHAYFGLPGSNNDI 7260809 79******************************************************.********************************** PP Plant_tran 92 nvldrsplfadilkGeaprvkyvvnekqynlayyladGiypkwatlvksirlpqlekkklfaqkqeaarkdverafGvlqarfkivakpar 182 nvl++s+lfa++++G+ap ++yv+nek+yn++yyladGiypkw+tlv++i++p+ +kkklfa+kqea+rkdverafGvlq+rf+iva p+r Chr1_5 7260810 NVLEASHLFANLAEGTAPPASYVINEKPYNMSYYLADGIYPKWSTLVQTIHDPRGPKKKLFAMKQEACRKDVERAFGVLQSRFAIVAGPSR 7260900 ******************************************************************************************* PP Plant_tran 183 lwekedlakimkaciilhnmivederdld 211 lw+k++l++im++cii+hnmi+ederd+d Chr1_5 7260901 LWNKTVLHDIMTSCIIMHNMIIEDERDID 7260929 **************************985 PP >> Peptidase_C48 Ulp1 protease family, C-terminal catalytic domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 183.9 0.5 3.4e-57 9.2e-57 1 214 [. 3695605 3695816 .. 3695605 3695818 .. 0.97 2 ! 175.5 0.0 1.2e-54 3.4e-54 1 213 [. 4460827 4461038 .. 4460827 4461041 .. 0.97 3 ! 101.7 0.0 4.5e-32 1.2e-31 30 213 .. 4697129 4697315 .. 4697128 4697318 .. 0.95 4 ! 85.3 0.0 4.8e-27 1.3e-26 1 163 [. 4837873 4838037 .. 4837873 4838038 .. 0.97 5 ! 97.8 0.1 7.6e-31 2e-30 8 191 .. 4851259 4851439 .. 4851258 4851448 .. 0.93 6 ! 33.8 0.2 2.9e-11 7.7e-11 72 165 .. 5400330 5400428 .. 5400317 5400430 .. 0.87 7 ! 40.6 0.0 2.3e-13 6.2e-13 7 199 .. 5746593 5746777 .. 5746590 5746788 .. 0.85 Alignments for each domain: == domain 1 score: 183.9 bits; conditional E-value: 3.4e-57 ----HHHHHHHHHH.......HHHTSTTEEE--THHHHHHH.....................H------TTCCHHCS..-GGG-SEEE CS Peptidase_C48 1 ewlndtvidfylkllaerlesseekaervhflntffvskLtkkvkdfkknkskkkfkeskk.kdlyngvrrwtrkknkedlfdkdiiy 87 ++l+++++++++k+ +++ a+r+ +l+ +++++Ltk+v dfkk+ +k+ fk++k +d++ngv+ ++++ n+++l+d+d++y Chr1_5 3695605 QHLEMMAMLMWHKNG------EQMIANRCIVLDMMLTHLLTKRVGDFKKCINKNGFKWGKLlSDIANGVHINREP-NMKWLKDVDVVY 3695685 69999*********9......9*****************************************************.7*********** PP --EET.TTEEEB--EETTTTEE-EE-TT-----....HHHHHHHHHHHHHHHHHTT.S------......EEEEE------------- CS Peptidase_C48 88 iPinedgkHWvlliinlpkktililDSlislhk...vkkenrpidnlkpyLleeal.nkkskqldltpfeierltkvpqqknsgDCGi 171 +P+n+++ HWv+l inl+++ i+++D lis+++ vk++++pi+++++yL++ ++ + ++ +++pfe++r+ +v+q++++gDCG+ Chr1_5 3695686 APMNWKSEHWVALGINLNERLITVYDALISHTResaVKARMTPICEMMSYLVRAMC*DVMISPYSVEPFEYVRCPTVAQNPTTGDCGP 3695773 ******************************************************988887888899********************** PP HHHHHHH-------S---H....HHHHHHHHHHH...HHHHTT CS Peptidase_C48 172 yvlkfiellaegppqessvtltekdvdsfrkklaldiyeilrs 214 y++kf+ella g+p++ t++e d+ ++r+k+++diye+ ++ Chr1_5 3695774 YTMKFLELLAFGHPFSELITIREVDMVFYRQKYSVDIYEHDKR 3695816 *****************999*******************9875 PP == domain 2 score: 175.5 bits; conditional E-value: 1.2e-54 ----HHHHHHHHHH.......HHHTSTTEEE--THHHHHHH.....................H------TTCCHHCS..-GGG-SEEE CS Peptidase_C48 1 ewlndtvidfylkllaerlesseekaervhflntffvskLtkkvkdfkknkskkkfkeskk.kdlyngvrrwtrkknkedlfdkdiiy 87 ++++++++++++k+ +++k++r++++++ ++++L+++ ++f++++++++fk++k +++ +g + ++++ + +++ d+dii+ Chr1_5 4460827 QHMEMMALLMWHKNG------EHMKRNRYVVVDPRLTFLLSSCANAFRSCRKPDTFKWDKLlTRFPKGECLNREP-QLHWIRDVDIIF 4460907 588888888889888......9***********************************************999999.89********** PP --EET..TTEEEB--EETTTTEE-EE-TT-----....HHHHHHHHHHHHHHHHHTTS------.......EEEEE------------ CS Peptidase_C48 88 iPined.gkHWvlliinlpkktililDSlislhk...vkkenrpidnlkpyLleealnkkskql.dltpfeierltkvpqqknsgDCG 170 +P+n++ +kHWv+l+i+l+++ i+i+D+l+sl++ v++++ pi++++pyL++ +++++ +++ +tpf ++r + +pq++++gDCG Chr1_5 4460908 VPMNWKaEKHWVGLAICLQRRVIEIMDPLRSLTResvVRSRILPIMEMLPYLVRATCKDYLDKPyPVTPFTYIRNQRLPQNPTTGDCG 4460995 **************************************************************************************** PP -HHHHHHH-------S---H....HHHHHHHHHHH...HHHHT CS Peptidase_C48 171 iyvlkfiellaegppqessvtltekdvdsfrkklaldiyeilr 213 +y++kfiel++ ++p e+ +++e d+ +frk +a++ ye+ Chr1_5 4460996 PYAMKFIELYMLNTPVEDRFSIEEDDMYNFRKGYAVELYEHGI 4461038 *******************99*******************975 PP == domain 3 score: 101.7 bits; conditional E-value: 4.5e-32 EE--THHHHHHH.....................H------TTCCHHCS..-GGG-SEEE--EET.TTEEEB--EETTTTEE-EE-TT- CS Peptidase_C48 30 hflntffvskLtkkvkdfkknkskkkfkeskk.kdlyngvrrwtrkknkedlfdkdiiyiPinedgkHWvlliinlpkktililDSli 116 +f++t+f+++L++k++dfk++k+k kf+++ ++++g+ + ++++ l + +yiP+ + ++HWv+l+inl+ +t+ ++D+li Chr1_5 4697129 VFIDTWFLTLLNEKYTDFKASKNKRKFNWGVNiRAFVTGRAKGRAPT--TFLQYAHLVYIPMKWYTSHWVSLVINLRLHTVQVFDPLI 4697214 699****************************************9998..577778889****************************** PP ----....HHHHHHHHHHHHHHHHH.TTS------......EEEEE-------------HHHHHHH-------S---H....HHHHHH CS Peptidase_C48 117 slhk...vkkenrpidnlkpyLlee.alnkkskqldltpfeierltkvpqqknsgDCGiyvlkfiellaegppqessvtltekdvdsf 200 ++ v+ ++p+ +++++L++e + +k++k+++ +p er+ +v+q++++gD G+ + k+ie+++ + +++ + te+ vd++ Chr1_5 4697215 EATSdeeVQGLMAPVLEMISWLVKEvVGKKYTKKFSTNPLTLERVIGVYQNQRGGDTGPLATKYIEMHSFELDIDDMGEYTEEVVDEL 4697302 *************************6668889999******************************************99********* PP HHHHH...HHHHT CS Peptidase_C48 201 rkklaldiyeilr 213 rk +ald y+++ Chr1_5 4697303 RKGYALDEYAEFI 4697315 *******999876 PP == domain 4 score: 85.3 bits; conditional E-value: 4.8e-27 ----HHHHHHHHHH.........HHHTSTTEEE--THHHHHHH.....................H------TTCCHHCS..-GGG-SE CS Peptidase_C48 1 ewlndtvidfylkllaerles..seekaervhflntffvskLtkkvkdfkknkskkkfkeskk.kdlyngvrrwtrkknkedlfdkdi 85 ++++++v+d+++k+ ++ l++ + ++ rv++l ++fvs+Lt+++++f k++ +++ ++++ dl g + +r + +++ d+ Chr1_5 4837873 KHFTSKVMDALIKFPRHLLRTdgIDGEKLRVDVLGSKFVSQLTRLFSKFAKTSLPEDLIFPAAlVDLLMGIGESDRVR---LFAEDDC 4837957 699**************************************************************************9...******* PP EE--EET.TTEEEB--EETTTTEE-EE-TT-----....HHHHHHHHHHHHHHHHHTTS------......EEEEE----- CS Peptidase_C48 86 iyiPinedgkHWvlliinlpkktililDSlislhk...vkkenrpidnlkpyLleealnkkskqldltpfeierltkvpqq 163 y+P+n+d+kHWv+l+++l+ ++i+i DS+i+l++ +e +p+++++pyL+++a + l l+pf +r + +pq Chr1_5 4837958 MYMPFNFDKKHWVALCVDLKTHKITIIDSNIQLRRdsaLYAELHPLAAMLPYLFKQANSSGGPIL-LQPFPLDRPHDIPQV 4838037 **************************************9*****************988877778.*************95 PP == domain 5 score: 97.8 bits; conditional E-value: 7.6e-31 HHHHHHH.......HHHTSTTEEE--THHHHHHH.....................H------TTCCHHCS..-GGG-SEEE--EET.T CS Peptidase_C48 8 idfylkllaerlesseekaervhflntffvskLtkkvkdfkknkskkkfkeskk.kdlyngvrrwtrkknkedlfdkdiiyiPinedg 94 +++++ ll++rl ++ +++r +f++++ ++L+ k+k+fk++k k+++++s++ k+++ g+ n+e+++d+d+iy+ + +d+ Chr1_5 4851259 MEVLVSLLSQRLA-TTLTNQRAAFVQPWSANHLQGKFKSFKAAKFKSRVRWSEPmKRFIVGP-------NTEWFTDIDTIYLHMIWDS 4851338 7777888888877.99**********************************************.......788**************** PP TEEEB--EETTTTEE-EE-TT-----....HHHHHHHHHHHHHHHHHTTS------.......EEEEE------.-------HHHHHH CS Peptidase_C48 95 kHWvlliinlpkktililDSlislhk...vkkenrpidnlkpyLleealnkkskql.dltpfeierltkvpqqk.nsgDCGiyvlkfi 177 kHWv+l+inl ++++ilD++ +l+k v++ ++p+ +++pyL++++++++++q+ l+pf ++ +++++++ + CG++++kf+ Chr1_5 4851339 KHWVGLAINLGVWSVEILDPNTDLYKeddVQRFIEPVFTILPYLIQRYCKPECSQNhGLQPFIWRQIDGLYKNL*S-ANCGPVAMKFL 4851425 *******************************************************99**************87443.57********* PP H-------S---H. CS Peptidase_C48 178 ellaegppqessvt 191 e++a ++ e+ ++ Chr1_5 4851426 EFQASDNLPEKWQK 4851439 *****998887655 PP == domain 6 score: 33.8 bits; conditional E-value: 2.9e-11 CHHCS..-GGG-SEEE--EET.TTEEEB--EETTTTEE-EE-TT-----.......HHHHHHHHHHHH.HHHHHTTS------..... CS Peptidase_C48 72 trkknkedlfdkdiiyiPinedgkHWvlliinlpkktililDSlislhk......vkkenrpidnlkp.yLleealnkkskql.dltp 151 t ++++++d+d++yi+ +++g+HW+ l++nl +++++D++++ h+ + + +rp+++++p + e ++ + d+++ Chr1_5 5400330 T---QMKWITDVDHLYIIHQTGGNHWMTLHVNLLTSHFDCYDCIVGEHTeesd*kMLEACRPFTRMIP*MMNELISSEVRIPHyDQFS 5400414 3...567**********************************************************9988766665555555557**** PP ..EEEEE------- CS Peptidase_C48 152 feierltkvpqqkn 165 f+++ ++kv q+ + Chr1_5 5400415 FRQRDKKKVLQNTQ 5400428 ***********975 PP == domain 7 score: 40.6 bits; conditional E-value: 2.3e-13 HHHHHHHH.........HHHTSTTEEE--THHHHHHH....................H------TTCCHHCS..-GGG-SEEE--EET CS Peptidase_C48 7 vidfylkllaerles..seekaervhflntffvskLtkkvkdfkknkskkkfkeskkkdlyngvrrwtrkknkedlfdkdiiyiPine 92 vid +++ ++ + + ek + v f+++ fv L k++++f k+ +k + g+ + + + d++yiP+ + Chr1_5 5746593 VIDIFINSIRIDWRAnnIIEKHQAVSFIDSTFVVELCKHYPKFVKSADK----------GLYGFDHDLLEC---TPTGSDVVYIPFLI 5746667 66666776666666666789999********************999955..........555555555555...7889********** PP .TTEEEB--EETTTTEE-EE-TT-----....HHHHHHHHHHHHHHHHHTTS------.......EEEEE-------------HHHHH CS Peptidase_C48 93 dgkHWvlliinlpkktililDSlislhk...vkkenrpidnlkpyLleealnkkskql.dltpfeierltkvpqqknsgDCGiyvlkf 176 d HWv+l+++ + i +lDS +l + k p+++++pyL++ a++k ++ l++f + r +pq ++ +G+ + Chr1_5 5746668 DLQHWVGLCVDMSARIISVLDSYTGLWRetkLKNVLLPLAEMLPYLFRFAIKKAGEKKlHLKSFAVHRENDIPQADSVKYSGVMAARL 5746755 ***************************999999999*************99998776669**************************** PP HH-------S---H....HHHHH CS Peptidase_C48 177 iellaegppqessvtltekdvds 199 ie +a g q + +++dv Chr1_5 5746756 IEAHANGGIQACKE-VKHADVVT 5746777 *****999988643.66666655 PP >> Retrotrans_gag Retrotransposon gag protein # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 28.3 0.0 1.5e-09 4e-09 2 95 .. 4523368 4523462 .. 4523367 4523463 .. 0.96 2 ! 48.2 0.0 9.5e-16 2.6e-15 1 93 [. 4636439 4636530 .. 4636439 4636533 .. 0.98 3 ! 73.8 0.2 9.6e-24 2.6e-23 2 96 .] 4680647 4680742 .. 4680646 4680742 .. 0.98 4 ! 45.0 0.1 9.3e-15 2.5e-14 1 95 [. 5036922 5037013 .. 5036922 5037014 .. 0.98 5 ! 61.0 0.1 9.5e-20 2.6e-19 2 94 .. 5125741 5125832 .. 5125740 5125834 .. 0.98 6 ! 67.4 0.0 9.6e-22 2.6e-21 1 94 [. 5128978 5129070 .. 5128978 5129072 .. 0.98 7 ! 64.0 0.0 1.1e-20 3.1e-20 1 94 [. 5173812 5173904 .. 5173812 5173905 .. 0.98 8 ! 38.9 0.1 7.5e-13 2e-12 1 94 [. 5281212 5281304 .. 5281212 5281306 .. 0.92 9 ! 21.1 0.1 2.6e-07 7.1e-07 1 67 [. 5355768 5355832 .. 5355768 5355840 .. 0.91 10 ! 35.3 0.0 9.8e-12 2.6e-11 18 91 .. 5401433 5401505 .. 5401430 5401506 .. 0.92 11 ! 54.2 0.7 1.2e-17 3.4e-17 1 95 [. 5436973 5437066 .. 5436973 5437067 .. 0.98 12 ! 26.8 0.0 4.6e-09 1.2e-08 1 94 [. 5547721 5547813 .. 5547721 5547815 .. 0.97 13 ! 48.4 0.1 8.3e-16 2.2e-15 1 94 [. 5635887 5635979 .. 5635887 5635981 .. 0.98 14 ! 32.3 0.0 8.7e-11 2.4e-10 2 76 .. 5918466 5918538 .. 5918465 5918545 .. 0.92 Alignments for each domain: == domain 1 score: 28.3 bits; conditional E-value: 1.5e-09 Retrotrans_gag 2 lastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQgtesvreYyerfktladqlde...vvteea 85 l+ ++L g+ + ++slv+r ++ s++W++l++ + k + +++ql++++++l++gt++++eY++ ++t +dql ++++e+ Chr1_5 4523368 LIFSALIGAISPAVQSLVSRATNSSQIWSTLNNTYAKPSYG--HIKQLRQQIQRLTKGTKTIDEYVQSHTTRLDQLAIlgkPMEHEE 4523452 567889999********************************..**********************************99999***** PP Retrotrans_gag 86 kiekflaGLn 95 ++e +l+GL Chr1_5 4523453 QVEHILKGLP 4523462 ********96 PP == domain 2 score: 48.2 bits; conditional E-value: 9.5e-16 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 +l+++sL ++A+ w k+l +s+d + +d+kkaf+++f++++r+++l++e++ ++Q ++es++e +erfk + +q+++ ++++++ Chr1_5 4636439 RLFPFSLGDKAHLWEKTLPVDSVD---TLDDCKKAFLAKFFSNSRTARLRNEISGFNQkNSESFAEAWERFKGYSTQCPHhGFKKAS 4636522 5899********************...9*********************************************************** PP Retrotrans_gag 86 kiekflaG 93 +++++++G Chr1_5 4636523 LLSTLYRG 4636530 *******9 PP == domain 3 score: 73.8 bits; conditional E-value: 9.6e-24 Retrotrans_gag 2 lastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQgtesvreYyerfktladqlde.vvteeaki 87 la+++Leg+A+ w++s+ a++++a + W+d++ +f++++ p+e d++e+++ +l+Qg++svreY ++f++l+ ++ + +++++a++ Chr1_5 4680647 LAVHFLEGDAHLWWRSVTAKRRQADMFWADFVAEFNAKYCPQEALDRMEARFLELTQGERSVREYDREFNRLLVYAGRgMEDDQAQM 4680733 89****************************************************************************999****** PP Retrotrans_gag 88 ekflaGLne 96 ++fl+GL++ Chr1_5 4680734 RRFLRGLRP 4680742 *******85 PP == domain 4 score: 45.0 bits; conditional E-value: 9.3e-15 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqldevvteeak 86 kl+s +L+g+A+ w+++l++ si ++++ + +f+k++ k+ + +++++l+Q ++e++r ++++fk ++++l++ ++++++ Chr1_5 5036922 KLFSKNLCGQALMWFTQLEPGSIS---NFNEVSAVFLKQYSILLDKSISDTDFWNLSQgRNETLRTFITKFKNVLSKLPR-ISQQSA 5037004 68999*******************...9***************************************************7.****** PP Retrotrans_gag 87 iekflaGLn 95 ++++++GL+ Chr1_5 5037005 LSALRKGLW 5037013 ********7 PP == domain 5 score: 61.0 bits; conditional E-value: 9.5e-20 Retrotrans_gag 2 lastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteeak 86 l+++sL ++A++w ksl + i+ sW+d+kka++++f++++r+++l+++++ ++Q ++e++ e +erfk + +q+++ +++++++ Chr1_5 5125741 LFPFSLGDKAHQWEKSLPQGCIT---SWNDYKKALLAKFFSNSRTARLRNDISGFTQtNNETFYEAWERFKGYQTQCPHhGFSKASL 5125824 799********************...************************************************************* PP Retrotrans_gag 87 iekflaGL 94 ++++++G+ Chr1_5 5125825 LSTLYRGV 5125832 *******7 PP == domain 6 score: 67.4 bits; conditional E-value: 9.6e-22 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 +l+++sL ++A++w ksl + si+ sW+d+kkaf+++f++++r+++l+++++ ++Q ++e+++e +erfk + +q+++ ++++++ Chr1_5 5128978 RLFPFSLGDKAHQWEKSLPQGSIT---SWNDCKKAFLAKFFSNSRTARLRNDISGFTQtNNETFCEAWERFKGYQTQCPHhGFSKAS 5129061 5899********************...************************************************************ PP Retrotrans_gag 86 kiekflaGL 94 +++++++G+ Chr1_5 5129062 LLSTLYRGV 5129070 ********7 PP == domain 7 score: 64.0 bits; conditional E-value: 1.1e-20 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 +l+++sL ++A++w ksl + si+ sW+d+kkaf+++f++++r+++l+++++ + Q ++e+++e +erfk + +q+++ ++++++ Chr1_5 5173812 RLFPFSLGDKAHQWEKSLPQGSIT---SWNDCKKAFLAKFFSNSRTARLRNDISGFIQtNNETFCEAWERFKGYKTQCPHhGFSKAS 5173895 5899********************...************************************************************ PP Retrotrans_gag 86 kiekflaGL 94 +++++++G+ Chr1_5 5173896 LLSTLYRGV 5173904 *******96 PP == domain 8 score: 38.9 bits; conditional E-value: 7.5e-13 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleee.lrslrQ.gtesvreYyerfktladqlde.vvtee 84 +l+++sLe++A+ w k+l + s++ +W+d+kkaf+++f++ + + ++ ++ ++ ++Q + e++ e +erfk + +++++ +++++ Chr1_5 5281212 RLFPFSLEDKAHLWEKTLPQGSVT---TWDDCKKAFLAKFFS-NFRTATLQN*ISGFTQqNAETFFEAWERFKGYQTKCPHhGFKKA 5281294 5899********************...9**************.4444555668899***9*************************** PP Retrotrans_gag 85 akiekflaGL 94 ++++++++G+ Chr1_5 5281295 SLLSTLYRGV 5281304 *********7 PP == domain 9 score: 21.1 bits; conditional E-value: 2.6e-07 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYy 67 kl++ sL g+ swlk+l+a s + +W+ +k af+++f++++++++l+++l++++Q + e ++ + Chr1_5 5355768 KLFPYSLAGETTSWLKQLKAGSLK---TWRSIKIAFLNNFYDDAKSKELRNKLSTFTQgPAEAFKAAW 5355832 68999*******************...9******************************7777776655 PP == domain 10 score: 35.3 bits; conditional E-value: 9.8e-12 Retrotrans_gag 18 lvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteeakiekfl 91 l ++si+ sW+d+kk f+++fl+++r+++l++e++ +++ ++e++++ +erfk++ +q+++ +++++++++ ++ Chr1_5 5401433 LPPDSIT---SWDDCKKSFLAKFLSNARSARLRNEISGFNKkNNETFCKAWERFKSYTTQCPHhGFKKASLLSILY 5401505 5666777...************************************************************998776 PP == domain 11 score: 54.2 bits; conditional E-value: 1.2e-17 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 kl+s+sL ++ + +ks+++++ + sW+d+k af+++++ ++r++ +++e++s++Q gt+s++e +erfk + +++++ ++ ++ Chr1_5 5436973 KLFSFSLADKTHRLFKSMNPENLR---SWEDYKAAFLTQYFTQSRTAIMRNEISSFQQtGTKSFHEAWERFKVYYRECPHhGFRYAT 5437056 689*********************...************************************************************ PP Retrotrans_gag 86 kiekflaGLn 95 +i++f+ G++ Chr1_5 5437057 LINTFYMGVD 5437066 ********85 PP == domain 12 score: 26.8 bits; conditional E-value: 4.6e-09 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpser.kdqleeelrslrQ.gtesvreYyerfktladqlde.vvtee 84 kl++ sL g+A s lk+l+a s + +W+ +k af+++f++ + +++l+++l++++Q + e ++ + fk++ +++++ +++e Chr1_5 5547721 KLFPYSLAGEATSSLKQLKAGSLK---TWRSIKIAFLNNFYS-DA*SEELRNKLSTFTQgPAEAFKAAWVCFKEYQRDCPHhGFSEV 5547803 68999*******************...9**************.8899**************************************** PP Retrotrans_gag 85 akiekflaGL 94 +++ +f +G+ Chr1_5 5547804 QLLGTFFRGV 5547813 *********7 PP == domain 13 score: 48.4 bits; conditional E-value: 8.3e-16 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 kl++ sL g+A swlk+l+a s + +W+ +k af+++f++++++++l+++l++++Q + e ++ + rfk++ +++++ +++e + Chr1_5 5635887 KLFPYSLAGEADSWLKQLKAGSLK---TWRSIKIAFLNNFYDDAKSEELRNKLSTFTQgPAEAFKAAWVRFKEYQRDCPHhGFSEVQ 5635970 68999*******************...9*********************************************************** PP Retrotrans_gag 86 kiekflaGL 94 ++ +f +G+ Chr1_5 5635971 LLGTFFRGV 5635979 ********7 PP == domain 14 score: 32.3 bits; conditional E-value: 8.7e-11 Retrotrans_gag 2 lastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladq 76 l++ +L+g+A+ w+++l+ +s+d s+++l++ f+k++ d++ ++l+sl+Q ++e +r+++++ ++ + Chr1_5 5918466 LFVEHLKGPALDWFSRLEGNSVD---SFHELSTLFLKQYSVLIDPDTSDADLWSLSQqPNEPLRDFLANQRRGGSL 5918538 899********************...****************************************9988776555 PP >> Transposase_24 Plant transposase (Ptta/En/Spm family) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 45.5 0.0 7.8e-15 2.1e-14 2 50 .. 3859847 3859899 .. 3859846 3859903 .. 0.96 2 ! 79.5 0.0 2.4e-25 6.5e-25 7 104 .. 5278638 5278765 .. 5278636 5278767 .. 0.94 3 ! 41.8 0.2 1e-13 2.7e-13 1 49 [. 5600118 5600170 .. 5600118 5600173 .. 0.96 4 ! 65.3 0.1 5.9e-21 1.6e-20 53 121 .. 6136701 6136774 .. 6136697 6136776 .. 0.94 5 ! 44.6 0.2 1.4e-14 3.8e-14 54 121 .. 8358078 8358147 .. 8358076 8358149 .. 0.95 Alignments for each domain: == domain 1 score: 45.5 bits; conditional E-value: 7.8e-15 Transposase_24 2 pevwktLvayWdtekakkrseknkkar....nglgihkHtsgsksfaqirkel 50 +++w t++ yWdte+a+krs++++kar nglg+h H sg+ksf++i++el Chr1_5 3859847 ETLWGTMCDYWDTEEAQKRSKTYSKARlsdrNGLGPHVHYSGPKSFQEIQDEL 3859899 799************************************************98 PP == domain 2 score: 79.5 bits; conditional E-value: 2.4e-25 Transposase_24 7 tLvayWdtekakkrseknkkar....nglgihkHtsgsksfaqirkeleeek..........................gktpdraev 63 ++ayWdte a+krs +++ka nglg+h+H+sg+ksf++i++el + g+t++ +ev Chr1_5 5278638 VMCAYWDTEPAQKRSRTYSKAClsdrNGLGPHIHFSGPKSFQEIQDELVSFSvtsfsyltckflsi*avlvsvqeeklGRTVTLGEV 5278724 6********************99************************9887777888888889999999999999999********* PP Transposase_24 64 fieTHtkkDGtyvdekaeeiaekvkerlqereseseseasa 104 f eTHtk+DGtyvd+kae ia+++++++++r+s++e+easa Chr1_5 5278725 FVETHTKSDGTYVDRKAEMIAQTYEQNVRDRLSQLEAEASA 5278765 *************************************9986 PP == domain 3 score: 41.8 bits; conditional E-value: 1e-13 Transposase_24 1 dpevwktLvayWdtekakkrseknkkar....nglgihkHtsgsksfaqirke 49 dpevwk++v +W+++k++++s+++++ar +glgihkH+sg++s+++++++ Chr1_5 5600118 DPEVWKGMVSFWRDPKSERKSINSRNARyhdpDGLGIHKHRSGQTSYKARARK 5600170 79***********************************************9985 PP == domain 4 score: 65.3 bits; conditional E-value: 5.9e-21 Transposase_24 53 ek..gktpdraevfieTHtkkDGtyvdekaeeiaekvkerlqereseseseasaesdgssr...edkneiflqv 121 ek +ktpd++e+++eTH+k+DG+++d+k+eei+++v++r++e+es++ s++++es+gs++ ++kn+if++v Chr1_5 6136701 EKtgEKTPDFLELLDETHRKADGSFIDGKSEEIYKQVTSRIEEEESHMGSGDNPESTGSGGlsvHAKNKIFTEV 6136774 44469******************************************************************986 PP == domain 5 score: 44.6 bits; conditional E-value: 1.4e-14 Transposase_24 54 kgktpdraevfieTHtkkDGtyvdekaeeiaekvkerlqereseseseasaesdgssr..edkneiflqv 121 ++++ ++++v+++TH+k+DGtyvdeka+ iaek+ e+lqer+ +++ ++++s+ + e+kn+i++qv Chr1_5 8358078 NNEDSSFIAVMKKTHQKADGTYVDEKARVIAEKYDELLQERMAQMQLFDGENSTMNPLtiEEKNKIYVQV 8358147 58999************************************************99999*********998 PP >> hATC hAT family dimerisation domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 36.1 0.1 3.9e-12 1.1e-11 17 84 .] 140964 141031 .. 140956 141031 .. 0.93 2 ! 86.3 0.2 8.7e-28 2.4e-27 2 84 .] 2395532 2395615 .. 2395531 2395615 .. 0.98 3 ! 23.1 0.0 4.6e-08 1.3e-07 30 84 .] 4915582 4915638 .. 4915575 4915638 .. 0.95 4 ! 59.3 0.5 2.4e-19 6.5e-19 25 84 .] 8051032 8051091 .. 8051027 8051091 .. 0.96 5 ! 80.5 0.3 5.4e-26 1.5e-25 2 84 .] 9298457 9298540 .. 9298456 9298540 .. 0.98 Alignments for each domain: == domain 1 score: 36.1 bits; conditional E-value: 3.9e-12 hATC 17 efdvlewwkqnssryPnlsklardvLsipvssaasErsFstlgkvllesrnsleplnveallcieqwl 84 + ww q +++ P+l+++a ++Ls+ +s ++ Er +st +++++e+rn+++++++++l +++q+l Chr1_5 140964 LSNAGLWWEQFGDSAPVLQRVAIRILSQVCSGYNLERQWSTFQQMHWERRNKIDREILNKLAYVNQNL 141031 567788************************************************************97 PP == domain 2 score: 86.3 bits; conditional E-value: 8.7e-28 hATC 2 ldeyleelpvlrrne..efdvlewwkqnssryPnlsklardvLsipvssaasErsFstlgkvllesrnsleplnveallcieqwl 84 ld ylee pvl++ + ++dv+ +wk+n sr+ ls +a+d+Lsip++++asE++Fs++ +vl+++r++l p nv+allc+++w+ Chr1_5 2395532 LDMYLEE-PVLDMVSfkDMDVIAYWKNNVSRFKELSSMACDILSIPITTVASESAFSIGSRVLNKYRSCLLPTNVQALLCTRNWF 2395615 899****.*****99*********************************************************************5 PP == domain 3 score: 23.1 bits; conditional E-value: 4.6e-08 hATC 30 ryPnlsklardvLsipvssaasErsFstl..gkvllesrnsleplnveallcieqwl 84 +yP++++l++ vL++p+ +a+ Er Fs++ +k+ l++r+ ++ ln++ ++e++l Chr1_5 4915582 SYPLVYRLLKLVLTLPIATATVERCFSAMkiVKTTLRNRIGDQFLNDCLVCFVERKL 4915638 7****************************************************9876 PP == domain 4 score: 59.3 bits; conditional E-value: 2.4e-19 hATC 25 kqnssryPnlsklardvLsipvssaasErsFstlgkvllesrnsleplnveallcieqwl 84 +n sr+ ls +a+d+Lsip++++asE++Fs++ +vl+++r++l p nv+allc+++w+ Chr1_5 8051032 ENNVSRFKELSSMACDILSIPITTVASESAFSIGSRVLNKYRSCLLPTNVQALLCTRNWF 8051091 6899*******************************************************5 PP == domain 5 score: 80.5 bits; conditional E-value: 5.4e-26 hATC 2 ldeyleelpvlrrne..efdvlewwkqnssryPnlsklardvLsipvssaasErsFstlgkvllesrnsleplnveallcieqwl 84 ld ylee pvl++ + ++dv+ +wk+n sr+ ls +a+d+Lsi ++++asE++Fs++ +vl+++r++l p nv+allc+++w+ Chr1_5 9298457 LDMYLEE-PVLDMVSfrDMDVIAYWKNNVSRFKELSSMACDILSISITTVASESTFSIGSRVLNKYRSCLLPTNVQALLCTRNWF 9298540 899****.*****99*********************************************************************5 PP >> DUF659 Protein of unknown function (DUF 659) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 165.4 1.1 6.6e-52 1.8e-51 7 152 .. 140498 140643 .. 140495 140644 .. 0.99 Alignments for each domain: == domain 1 score: 165.4 bits; conditional E-value: 6.6e-52 DUF659 7 rgklLqeekkevkkklkelkksWettGcsiladswsdekgrslinllvscekgvvFlksvdasdevkdaeyllelldevveevGeenvVqvitdnas 103 ++++L++ k++++ +lk+++k+W ttGc+i+a++w+d+k+r+lin++vs++++++F+ksvdas+ +k++++l++l+d+v++++G+e++Vq+i+dn+ Chr1_5 140498 KTEWLDRVKSDISLQLKDTEKEWVTTGCTIIAEAWTDNKSRALINFSVSSPSRIFFHKSVDASSYFKNSKCLADLFDSVIQDIGQEHIVQIIMDNSF 140594 689********************************************************************************************** PP DUF659 104 nykaagklleekyksifwtpcaahcinlmLedisklewvseiiekakki 152 +y+ +++l ++y +if +pca++c+n++Le++sk++wv+++i++a+ i Chr1_5 140595 CYTGISNHLLQNYATIFVSPCASQCLNIILEEFSKVDWVNQCISQAQVI 140643 ***********************************************98 PP >> MuDR MuDR family transposase # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 40.7 0.8 1.4e-13 3.8e-13 3 67 .] 4708699 4708766 .. 4708697 4708766 .. 0.94 2 ! 51.9 1.8 4.5e-17 1.2e-16 3 67 .] 5668986 5669052 .. 5668984 5669052 .. 0.94 3 ! 51.0 0.2 8.5e-17 2.3e-16 3 67 .] 7210106 7210170 .. 7210104 7210170 .. 0.97 Alignments for each domain: == domain 1 score: 40.7 bits; conditional E-value: 1.4e-13 MuDR 3 elevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCk...kegCpWrvraskdkdsktfki 67 +e+ q+F ske +++ v++ a k +f+ ++ sd++r++++C+ + gC W++r++k+k+s++f++ Chr1_5 4708699 RIELHQEFVSKEVVQDLVNRAANKYCFATATIASDPQRLMLRCRqskTTGCRWYLRCAKVKSSDCFSV 4708766 6899****************************************876666****************97 PP == domain 2 score: 51.9 bits; conditional E-value: 4.5e-17 MuDR 3 elevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCk..kegCpWrvraskdkdsktfki 67 l++G++F++ e+fk+av +y++k+r+++k ++s++ ++ akC + +C+Wr+++s+d+++++++i Chr1_5 5668986 LLKLGKTFSCPEDFKIAVLRYSLKTRYDIKLYRSQTLKIGAKCLdtDVKCQWRCYCSYDRKKHKMQI 5669052 689****************************************965556****************98 PP == domain 3 score: 51.0 bits; conditional E-value: 8.5e-17 MuDR 3 elevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCkkegCpWrvraskdkdsktfki 67 ++ G+v++ske++++ ++++aikn+f+fk+++++ + +++ C++e+C+Wr+ a++++++++++i Chr1_5 7210106 GIYQGKVYASKEDCQIGLAIFAIKNQFHFKQTRTKWNYFVLSCSDEKCDWRILATVMNGTGYYEI 7210170 7899*********************************************************9998 PP >> MULE MULE transposase domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 33.0 0.0 5.3e-11 1.4e-10 9 93 .] 3609881 3609965 .. 3609879 3609965 .. 0.92 2 ! 39.2 0.1 6.2e-13 1.7e-12 2 93 .] 4708905 4708995 .. 4708904 4708995 .. 0.89 3 ! 64.3 0.1 9.2e-21 2.5e-20 2 92 .. 5646401 5646490 .. 5646400 5646491 .. 0.93 Alignments for each domain: == domain 1 score: 33.0 bits; conditional E-value: 5.3e-11 MULE 9 kgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkaln.g..pvvvitDgdkglakaikevfpdarhrlClwHilrnlk 93 kg+ l ++g da ++++p+a+a+v+ ++es wf e+lk++l g +++vi+D +kgl + + +++p+a+h C++ i++n+k Chr1_5 3609881 KGEILA---AMGRDAYNRIYPIAWAVVRVVDNESCAWFVEHLKNDLGlGvgNLIVISDKQKGLLNLVVDLLPQAEHMHCARYIYANWK 3609965 555666...55***********************************87367**********************************986 PP == domain 2 score: 39.2 bits; conditional E-value: 6.2e-13 MULE 2 tyktgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglak.aikevfpdarhrlClwHilrnlk 93 t+ + y g+l+ a + d +++ +++a a++++E+ sw+wf+++lk ++ + +v+++D++++++k +vfp+arh C+wH+ +n+k Chr1_5 4708905 TFLKTVYGGMLVFAT---AQDPNHHNYIIASAVIDRENDASWSWFFNKLKTVIPDepGLVFVSDRHQSIIK*FM-QVFPNARHGHCVWHLSQNVK 4708995 677777888888855...999999*****************************967678*********998876.58****************96 PP == domain 3 score: 64.3 bits; conditional E-value: 9.2e-21 MULE 2 tyktgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevfpdarhrlClwHilrnl 92 t+ + y g+l++a + d +++ +plaf++++sE+ sw wfle+lk ++++ +v+i+D++++++ka+k+v+p+a h C+wH+ +n+ Chr1_5 5646401 THLKTVYGGMLVIAT---AHDPNHHHYPLAFGIIDSEKDVSWIWFLEKLKTVYSDvpRLVFISDRHQSIKKAVKTVYPNALHAACIWHLCQNM 5646490 788888999999966...999999*****************************978677*******************************997 PP >> Transposase_23 TNP1/EN/SPM transposase # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 89.6 0.3 7.6e-29 2.1e-28 2 73 .] 5529091 5529162 .. 5529090 5529162 .. 0.98 Alignments for each domain: == domain 1 score: 89.6 bits; conditional E-value: 7.6e-29 Transposase_23 2 ksqkkckllDwkssddvVaegrvcssdpdelvnriPLGpnaakVlVdvvlvkdAalWRptseietledalgs 73 k+++kckl+D++++++vV+ grv+s d+d++v++++LG+naa+V++dvv+v+dAa+WRp+ eie+++d+lgs Chr1_5 5529091 KANQKCKLMDISGKKRVVGAGRVHSIDQDQKVHHVRLGENAARVWIDVVNVDDAAVWRPSNEIEYMRDSLGS 5529162 689*******************************************************************96 PP >> RVP_2 Retroviral aspartyl protease # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 40.6 0.0 2.4e-13 6.5e-13 34 134 .. 5638200 5638301 .. 5638197 5638302 .. 0.94 Alignments for each domain: == domain 1 score: 40.6 bits; conditional E-value: 2.4e-13 RVP_2 34 tvLfDsGashsfiskafvkkhglkveelktpllvssPggdi.katkrspsvsieiqgvdfladlilleskdlDviLGldWlakhkgvidCaertv 127 vLfDsGash fi+ + + +++++ e ++ v+ gg+ ++ r+ v+i+i++ +++adli+ D iLG+dWl +++ +dC ++ v Chr1_5 5638200 HVLFDSGASHCFITPESASRDNIRGEPGEQFGAVKIAGGQFlTVLGRAKGVNIQIEEESMPADLIINPVVLYDAILGMDWLDHYRVHLDCHRGRV 5638294 69*********************************999886156679999********************************************* PP RVP_2 128 tLtsekg 134 +++++g Chr1_5 5638295 SFERPEG 5638301 *999988 PP >> RnaseH RNase H [No individual domains that satisfy reporting thresholds (although complete target did)] >> Transposase_mut Transposase, Mutator family # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 24.5 0.0 9.5e-09 2.6e-08 169 352 .. 5646400 5646573 .. 5646393 5646582 .. 0.84 Alignments for each domain: == domain 1 score: 24.5 bits; conditional E-value: 9.5e-09 Transposase_mut 169 alyvkvReegrvvskavlvaiGvtadGkreiLgievadsEsekfWrtvledLkaRGlqgvelv.vsDghkGLkaaieavfpeasvQ 253 a+++k v + +++a++ +++ + L++ + dsE+ +W +le+Lk ++lv +sD h+ +k+a+++v+p+a + Chr1_5 5646400 ATHLK-----TVYGGMLVIATAHDPNHHHYPLAFGIIDSEKDVSWIWFLEKLKTVYSDVPRLVfISDRHQSIKKAVKTVYPNALHA 5646480 55444.....467778899999999999999***********************99999999879********************* PP Transposase_mut 254 rCivHllrnllaavpkkeakevaaalkaiykaadaeeaaaaleafleklakkypkvaelleeareellafldfpeeiwrklrstNa 339 Ci Hl +n+ + v+ + ++ +a ++++ +a + e ++++ +f+ + pk+ + l + e +f + ++ + N Chr1_5 5646481 ACIWHLCQNMRDRVKID-KDGAAVKFRDCAHAYTESEFEKEFGHFTSLW----PKAVDFLVKVGFEKWSRCHFKGDK-YNIDTSNS 5646560 ************99765.5667889*****************9999955....777777766666666777787665.56899999 PP Transposase_mut 340 iErlnkeirrrtk 352 E++n ++++ k Chr1_5 5646561 AESINGVFKKARK 5646573 9999999988765 PP Internal pipeline statistics summary: ------------------------------------- Query sequence(s): 1 (10142557 residues) Target model(s): 46 (7833 nodes) Passed MSV filter: 46 (1); expected 46.0 (1) Passed bias filter: 46 (1); expected 46.0 (1) Passed Vit filter: 46 (1); expected 46.0 (1) Passed Fwd filter: 46 (1); expected 46.0 (1) Initial search space (Z): 46 [actual number of targets] Domain search space (domZ): 17 [number of targets reported over threshold] # CPU time: 2060.32u 1.67s 00:34:21.99 Elapsed: 00:34:23.62 # Mc/sec: 38.50 // Query: Chr1_6 [L=10142557] Description: CHROMOSOME dumped from ADB: Jun/20/09 14:53; last updated: 2009-02-02 Scores for complete sequence (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Model Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 0 2677.7 4.1 1.1e-97 317.6 0.0 13.5 11 RVT_2 Reverse transcriptase (RNA-dependent DNA pol 0 2621.7 124.5 6e-185 606.9 0.0 10.4 8 ATHILA ATHILA ORF-1 family 0 1509.5 13.0 3.4e-96 312.5 0.1 5.8 5 Transposase_21 Transposase family tnp2 4.3e-272 877.1 45.9 1.1e-29 94.8 0.0 16.3 12 rve Integrase core domain 5.6e-257 822.8 82.6 1.3e-23 74.8 0.2 29.4 16 Retrotrans_gag Retrotransposon gag protein 5.3e-166 540.9 84.2 2.3e-58 189.1 0.2 11.9 6 Peptidase_C48 Ulp1 protease family, C-terminal catalytic d 1.3e-115 375.9 3.3 2.1e-42 136.6 0.2 5.2 5 Plant_tran Plant transposon protein 2.9e-112 365.0 31.4 2e-25 81.2 0.1 12.6 7 RVT_1 Reverse transcriptase (RNA-dependent DNA pol 3.5e-101 322.7 17.2 8.2e-26 81.2 1.9 7.8 4 Transposase_23 TNP1/EN/SPM transposase 4.5e-100 319.3 11.0 2.9e-26 82.8 0.3 6.1 5 hATC hAT family dimerisation domain 5.7e-76 245.0 97.6 6.4e-24 76.3 0.0 12.6 6 Transposase_24 Plant transposase (Ptta/En/Spm family) 1.3e-57 183.9 11.7 2.1e-19 61.3 0.0 9.0 3 MULE MULE transposase domain 5.5e-57 181.1 30.5 4.9e-15 46.8 1.5 6.1 5 MuDR MuDR family transposase 1.3e-26 84.9 0.1 5.1e-20 63.6 0.0 5.9 1 RVP_2 Retroviral aspartyl protease 3.9e-22 70.4 0.0 3.9e-22 70.4 0.0 1.8 1 Transposase_11 Transposase DDE domain 1.2e-17 56.4 2.3 0.00015 13.9 0.0 6.3 0 RnaseH RNase H 2.9e-15 47.8 0.9 1.1e-14 45.9 0.6 2.0 1 DUF659 Protein of unknown function (DUF 659) 8.4e-08 22.8 1.2 7.1e-06 16.5 0.0 2.2 0 Transposase_mut Transposase, Mutator family Domain annotation for each model (and alignments): >> RVT_2 Reverse transcriptase (RNA-dependent DNA polymerase) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 317.1 0.0 6.2e-98 1.6e-97 1 245 [. 2864282 2864527 .. 2864282 2864528 .. 0.99 2 ! 315.2 0.0 2.3e-97 5.9e-97 1 245 [. 2876368 2876613 .. 2876368 2876614 .. 0.99 3 ! 302.1 0.1 2.2e-93 5.7e-93 1 244 [. 4141149 4141396 .. 4141149 4141398 .. 0.97 4 ! 151.2 0.0 2.8e-47 7e-47 1 114 [. 4392797 4392909 .. 4392797 4392916 .. 0.96 5 ! 305.8 0.0 1.7e-94 4.2e-94 2 243 .. 4467264 4467505 .. 4467263 4467508 .. 0.99 6 ! 257.4 0.1 9.9e-80 2.5e-79 2 245 .. 4577142 4577385 .. 4577141 4577386 .. 0.97 7 ! 35.3 0.0 6.5e-12 1.7e-11 98 141 .. 4595841 4595884 .. 4595838 4595897 .. 0.93 8 ! 224.6 0.0 1e-69 2.7e-69 39 244 .. 4624676 4624881 .. 4624674 4624883 .. 0.98 9 ! 148.6 0.1 1.7e-46 4.3e-46 1 124 [. 4685237 4685361 .. 4685237 4685362 .. 0.99 10 ! 317.6 0.0 4.3e-98 1.1e-97 1 244 [. 5431984 5432231 .. 5431984 5432233 .. 0.97 11 ! 249.2 0.0 3.2e-77 8.2e-77 2 186 .. 5531664 5531847 .. 5531663 5531853 .. 0.96 Alignments for each domain: == domain 1 score: 317.1 bits; conditional E-value: 6.2e-98 RVT_2 1 nktwelvelpkgk.kviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngele 94 n+tw+lv++p+++ +++g++W+f++K+n+dg+++rykARlVakG++q+ g+dy etfspv+k +sir++l +a+ +++ ++qlDv++aFL+g+l+ Chr1_6 2864282 NHTWDLVPPPPSHvTIVGCRWIFTKKYNSDGSLNRYKARLVAKGYNQRPGLDYAETFSPVIKSTSIRIVLGVAVDRSWPIRQLDVNNAFLQGTLT 2864376 79*****9988776999****************************************************************************** PP RVT_2 95 eevYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeL 189 ++vY++qp+Gf dk+++n+vckL+k+lYgLkqapraWy +l+++ll++gf +s +d++lfv +++++++++l+YVDD+li+g++ +l++++ ++L Chr1_6 2864377 DDVYMSQPPGFIDKDRPNYVCKLRKALYGLKQAPRAWYVELRNYLLTIGFVNSVSDTSLFVLQRGKSIVYMLVYVDDILITGNDPTLLHNTLDNL 2864471 *********************************************************************************************** PP RVT_2 190 kkefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 +++f++kd +el+yfLg+e +r +g++lsq++y+ +ll++++m +akpv+tp+++ Chr1_6 2864472 SQRFSVKDHEELHYFLGIEAKRVPTGLHLSQRRYILDLLARTNMITAKPVTTPMAP 2864527 ******************************************************86 PP == domain 2 score: 315.2 bits; conditional E-value: 2.3e-97 RVT_2 1 nktwelvelpkgk.kviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngele 94 n+tw+lv++p+++ +++g++W+f++K+n+dg+++rykAR+VakG++q+ g+dy etfspv+k +sir++l +a+ +++ ++qlDv++aFL+g+l+ Chr1_6 2876368 NHTWDLVPPPPSHvTIVGCRWIFTKKYNSDGSLNRYKARFVAKGYNQRPGLDYAETFSPVIKSTSIRIVLGVAVDRSWPIRQLDVNNAFLQGTLT 2876462 79*****9988776999****************************************************************************** PP RVT_2 95 eevYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeL 189 ++vY++qp+Gf dk+++n+vckL+k+lYgLkqapraWy +l+++ll++gf +s +d++lfv +++++++++l+YVDD+li+g++ +l++++ ++L Chr1_6 2876463 DDVYMSQPPGFIDKDRPNYVCKLRKALYGLKQAPRAWYVELRNYLLTIGFVNSVSDTSLFVLQRGKSIVYMLVYVDDILITGNDPTLLHNTLDNL 2876557 *********************************************************************************************** PP RVT_2 190 kkefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 +++f++kd +el+yfLg+e +r +g++lsq++y+ +ll++++m +akpv+tp+++ Chr1_6 2876558 SQRFSVKDHEELHYFLGIEAKRVPTGLHLSQRRYILDLLARTNMITAKPVTTPMAP 2876613 ******************************************************86 PP == domain 3 score: 302.1 bits; conditional E-value: 2.2e-93 RVT_2 1 nktwelvelpkgkkviglkWvfklKlnedg.eierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngele 94 n+tw+lv++p ++k+ig++Wvf++K g e r+kARlVakGftqkeg+dy+e+fspvvk+ sir++l+++a+ ++el+q+DvktaFL+g l+ Chr1_6 4141149 NHTWDLVDKPVNAKIIGCRWVFTRKAGIPGvEAPRFKARLVAKGFTQKEGVDYNEIFSPVVKHVSIRFMLSMVAQFDMELHQMDVKTAFLHGFLD 4141243 79****************************999************************************************************** PP RVT_2 95 eevYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeel.iivllYVDDlliagsskelieelkee 188 ee+ ++qpeGfedkk ++kvc Lk+slYgLkq+pr+W+ +++e++++++f++s++d+c+++k++++++ ++llYVDD+lia+++k+ i el ++ Chr1_6 4141244 EEILMAQPEGFEDKKYPEKVCLLKRSLYGLKQSPRQWNLRFDEFMKSIDFTRSAYDSCVYLKQQSDKSyGYLLLYVDDMLIAAKEKSSIMEL-KQ 4141337 ***************************************************************9999879*******************997.59 PP RVT_2 189 .LkkefemkdlgelkyfLgleier..keegillsqekyvkkllkkfkmedakpvstple 244 L kefemkdlge++++Lg+ei+r ++ ++lsqe yvkk+l++ +m++akpvstpl Chr1_6 4141338 *LGKEFEMKDLGEAQKILGMEIARdrAAGVLTLSQEGYVKKVLRSSQMDQAKPVSTPLG 4141396 999********************97677889**************************85 PP == domain 4 score: 151.2 bits; conditional E-value: 2.8e-47 RVT_2 1 nktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngelee 95 n+tw++++lp+gkk+i++kW++klK n+dg++er+kARlV+ G++qkegid++etf+pv+k++++r+lla+aa+k++e++q+Dv++aFL+g+lee Chr1_6 4392797 NHTWDITDLPHGKKAISSKWLYKLKFNSDGTLERHKARLVVMGNHQKEGIDFKETFAPVAKMTTVRTLLAVAAAKDWEVHQMDVHNAFLHGDLEE 4392891 79********************************************************************************************* PP RVT_2 96 evYvkqpeGfedkkkenkv 114 evY+k p+Gf+ ++ ++kv Chr1_6 4392892 EVYMKLPPGFKCSD-PKKV 4392909 ***********996.5555 PP == domain 5 score: 305.8 bits; conditional E-value: 1.7e-94 RVT_2 2 ktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleee 96 +tw+lv+ ++++ v+g+kW+f++Kln+dg++++ kARlV++G++q egidy et+spvv+++++r +l+la+ ++++++q+Dv++aFL+g+l+e+ Chr1_6 4467264 ETWSLVPYTPDMLVLGSKWIFRTKLNADGSLQKLKARLVTQGYNQAEGIDYLETYSPVVRTATVRGVLHLATIMEWDIKQMDVQNAFLHGDLTET 4467358 79********************************************************************************************* PP RVT_2 97 vYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkeeLkk 191 vY++qp Gf+d++k+n+vc+L+kslYg+kq+praW++k+s++ll++gf+ s d++lfv+++++++i++llYV+D+li+g+s+e++++l +eL+k Chr1_6 4467359 VYMAQPAGFVDPDKPNYVCHLHKSLYGMKQSPRAWFDKFSTYLLEFGFHCSIPDPSLFVYSRGKDIILLLLYVNDMLITGNSSETLASLLAELNK 4467453 *********************************************************************************************** PP RVT_2 192 efemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstpl 243 +f+mkd+g+++yfLg++ + ++eg++lsq+ky+++l ++m+d+ p+ tpl Chr1_6 4467454 RFKMKDMGQMHYFLGIQAQFHSEGLFLSQQKYAEDLPIAASMSDCAPMPTPL 4467505 **************************************************97 PP == domain 6 score: 257.4 bits; conditional E-value: 9.9e-80 RVT_2 2 ktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleq.lDvktaFLngelee 95 ++w+l+++p +++v+g+kW+fk+K nedg ++r+kARlVa+G++q eg+d+eetf+pv++lesir+l+ ++++ +++l + +Dvk aFLng l+e Chr1_6 4577142 EVWDLTPQPADSNVVGTKWIFKNKINEDGLVVRNKARLVAQGYSQVEGVDFEETFAPVARLESIRFLFGMVCALNFKL-H*MDVKHAFLNGVLQE 4577235 79*************************************************************************998.999************* PP RVT_2 96 evYvkqpeGfedkkkenkvck.LkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelk.ee 188 evYv+qp+Gfe++k++n+v Lkk+lYgLkqapraWye+l+++l ++g+ + + dk+lfv k++++l+iv++YVDD+++ ++ +e +e+++ + Chr1_6 4577236 EVYVEQPKGFENSKHPNHV-Y*LKKALYGLKQAPRAWYERLTTFLVNQGYVRGSVDKTLFVLKDDNGLLIVQIYVDDIVFGSTCQEYVERFV*S- 4577328 *************999997.6669**************************************************************99998666. PP RVT_2 189 LkkefemkdlgelkyfLgleierkeegillsqekyvkkllkkfkmedakpvstplea 245 ++kefem+ +gel+yfLgl+i+++e+g+++sq++y+k+l+++++++ +k+++tp++ Chr1_6 4577329 MTKEFEMSLCGELTYFLGLQIKQTEHGFFISQSTYAKNLVERYGLKGSKTARTPMDV 4577385 799****************************************************85 PP == domain 7 score: 35.3 bits; conditional E-value: 6.5e-12 RVT_2 98 YvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllk 141 Y+ p Gf+d++++ +vckL+k+lYgLkqapraW++++ +++++ Chr1_6 4595841 YMYPPAGFVDNRNPGYVCKLNKALYGLKQAPRAWNARFVAYVKR 4595884 9*************************************998875 PP == domain 8 score: 224.6 bits; conditional E-value: 1e-69 RVT_2 39 lVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleeevYvkqpeGfedkkkenkvckLkkslYgLkqapraWye 133 lVa+Gftq++g dy+etf pv+kl+++r++l++a++ +++l+q+ vk+aFL+geleeevY++ p+G+ed+ + kv++L+k++YgLkq+pr Wy+ Chr1_6 4624676 LVARGFTQTYGRDYTETFDPVAKLHTVRVVLSFATNLSWDLWQVNVKNAFLQGELEEEVYMTPPPGLEDSIALGKVLRLRKAIYGLKQSPRVWYH 4624770 8********************************************************************************************** PP RVT_2 134 klsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelkee.LkkefemkdlgelkyfLgleierkeegillsqekyvkkl 227 kls++l+++gfkksead++lf ++++++i+vl+YVDD++i g++ke i+++ + Lk++ ++k lgelkyfLg+e+ r+ eg++lsq+ky+ +l Chr1_6 4624771 KLSTTLKEKGFKKSEADHTLFALQSDQGIIVVLIYVDDIIISGDNKEGIHDT-KL*LKSTLDIKYLGELKYFLGIEVCRSLEGLFLSQRKYTLDL 4624864 *************************************************995.4677************************************** PP RVT_2 228 lkkfkmedakpvstple 244 l++++ +kp++tpl Chr1_6 4624865 LNETGKLGSKPAKTPLV 4624881 ***************85 PP == domain 9 score: 148.6 bits; conditional E-value: 1.7e-46 RVT_2 1 nktwelvelpkgkkviglkWvfklKlnedg.eierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngele 94 nktw lve++k++k+ig+kWvfk+K g e r+kARlV+kG++qkegi ++e+fspvvk+ sirlll+++ + ++el+q+D ktaFL+g l+ Chr1_6 4685237 NKTWVLVERNKSQKPIGCKWVFKRKAGIAGvEKPRFKARLVTKGYSQKEGIYFQEIFSPVVKYVSIRLLLSIVFHLDMELQQMDFKTAFLHGYLD 4685331 79****************************9999************************************************************* PP RVT_2 95 eevYvkqpeGfedkkkenkvckLkkslYgL 124 e ++++qpeG++++k ++ vc Lk+ lYgL Chr1_6 4685332 EMIFMDQPEGYVHEKYPKRVCLLKRYLYGL 4685361 *****************************9 PP == domain 10 score: 317.6 bits; conditional E-value: 4.3e-98 RVT_2 1 nktwelvelpkgkkviglkWvfklKlnedg.eierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngele 94 n tw+lv++pk++k+ig++W+fklK g e +r+kARlVakG+tq+eg+dy+e+f+pvvk+ sir+l++l++ k+leleq+Dvkt+FL+g+le Chr1_6 5431984 NGTWDLVDKPKDRKIIGCRWLFKLKSGIPGvEPTRFKARLVAKGYTQREGVDYQEIFAPVVKHVSIRILMSLVVDKDLELEQMDVKTTFLHGDLE 5432078 68****************************999************************************************************** PP RVT_2 95 eevYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeel.iivllYVDDlliagsskelieelkee 188 ee+Y++qpeGf+++++enkvc+LkkslYgLkq+pr+W++++++++ +++f +se+d c++vk+ +e+ i++llYVDD+liag sk++i+++ke+ Chr1_6 5432079 EELYMEQPEGFVSDSSENKVCRLKKSLYGLKQSPRQWNKRFDRFMSSQQFIRSEHDACVYVKHVSEHDfIYLLLYVDDMLIAGASKAEINRVKEQ 5432173 **************************************************************9877666************************** PP RVT_2 189 LkkefemkdlgelkyfLgleier..keegillsqekyvkkllkkfkmedakpvstple 244 L++efemkd+g ++++Lg++i r k + + lsqe y++k+l++f+m+ ak ++ p+ Chr1_6 5432174 LSTEFEMKDMGGASRILGIDIYRdrKGGVLKLSQEIYIRKVLDRFNMSGAKMTNAPVG 5432231 **********************954555689**********************99986 PP == domain 11 score: 249.2 bits; conditional E-value: 3.2e-77 RVT_2 2 ktwelvelpkgkkviglkWvfklKlnedgeierykARlVakGftqkegidyeetfspvvklesirlllalaaekkleleqlDvktaFLngeleee 96 tw++++lp+g k+ig+kWvf++K+n++g++erykARlVa G++qkegid+++tf+pvvk++++rlll++aa+k++el+q+Dv++aFL+g+l+e+ Chr1_6 5531664 GTWDITKLPQGVKAIGSKWVFRIKYNSNGTVERYKARLVALGNHQKEGIDFTKTFAPVVKMQTVRLLLDVAAAKDWELHQMDVHNAFLHGDLKED 5531758 69********************************************************************************************* PP RVT_2 97 vYvkqpeGfedkkkenkvckLkkslYgLkqapraWyeklsevllklgfkkseadkclfvkkkeeeliivllYVDDlliagsskelieelk 186 +Y+k p+Gf++++ ++ vckLkks+YgLkqapr+W+ekls+ llk+gf++s++d +lf++ ++++++ v++YVDD++i+g+ ++ ++ k Chr1_6 5531759 IYMKPPPGFKTTD-PSLVCKLKKSIYGLKQAPRCWFEKLSTSLLKFGFTQSKKDYSLFTSIRGSKVLHVIVYVDDVVICGKAVRENNTSK 5531847 **********995.9*****************************************************************9887766655 PP >> ATHILA ATHILA ORF-1 family # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 564.5 0.1 1.7e-172 4.4e-172 1 457 [. 4776158 4776638 .. 4776158 4776639 .. 0.99 2 ! 49.4 0.0 3.1e-16 7.8e-16 111 179 .. 4906318 4906386 .. 4906315 4906388 .. 0.97 3 ! 219.1 0.0 1e-67 2.6e-67 276 458 .] 4906484 4906666 .. 4906482 4906666 .. 0.98 4 ! 554.3 0.0 2.1e-169 5.5e-169 1 407 [. 5119637 5120041 .. 5119637 5120050 .. 0.98 5 ! 241.0 0.0 2.2e-74 5.7e-74 234 458 .] 5121054 5121268 .. 5121039 5121268 .. 0.97 6 ! 315.5 0.0 5.7e-97 1.4e-96 200 457 .. 5186304 5186558 .. 5186301 5186559 .. 0.99 7 ! 162.5 0.2 1.5e-50 3.8e-50 2 170 .. 5195043 5195217 .. 5195042 5195219 .. 0.90 8 ! 606.9 0.0 2.3e-185 6e-185 1 458 [] 5414839 5415294 .. 5414839 5415294 .. 0.97 Alignments for each domain: == domain 1 score: 564.5 bits; conditional E-value: 1.7e-172 ATHILA 1 trreeiargkrvves..........eeevieEdvev..eyepepvrrrtkelkkkdeltpeeYykllkelefegTryphketlaeLglledvdyl 83 ++ree+argkrvve+ ee+v+eE+ve+ +++p+pv +r+++l++k e+tp+eYy++lkel+f gTryphket++eLg++ dv+yl Chr1_6 4776158 MQREEVARGKRVVEAeeehheeapfEEAVSEEEVEIigDDTPAPV-GRRNRLRRKGEPTPNEYYQYLKELKFDGTRYPHKETMQELGICGDVEYL 4776251 68*******************************************.9************************************************ PP ATHILA 84 fkkakletfmsypyeaykeetveflstlelelyqesedrekeeeg.lGyitFkvkgveyslsikqleeifgFpskkgikpkfdkeeLksLwatia 177 ++ ++l+tfms+++ +ykee++++l+tl++++ + d+ekee+g lGyit kv++vey+l i++l++ifgFps++ i++++d++eLk+Lw+tia Chr1_6 4776252 MELVNLATFMSCQCGGYKEESCQLLATLKVHFC--VDDSEKEERGgLGYITLKVRDVEYTLYIRHLDTIFGFPSGEVIRQDYDQDELKFLWKTIA 4776344 ********************************9..99********************************************************** PP ATHILA 178 sklplnsarsKsnqirspvirylqrsiAnvlfsrestgtvtns.elelldqaLkeiLrrtkdgrklkgdlndtslsvvLldhLlsYreyaatikk 271 +p+ sa+sKs++ir+pv yl+++iAn+lf+++ t +v + el+++dq+L++iLr+tkd rk++gd++dtslsvvLldhLlsYreyaa i++ Chr1_6 4776345 CLKPYASAKSKSSSIRNPVTIYLHQCIANTLFPKNATRFV-GE*ELCIIDQSLVFILRETKDRRKMAGDRADTSLSVVLLDHLLSYREYAAIIHR 4776438 ***********************************99888.5788************************************************** PP ATHILA 272 k.lrGslcvGGvvTpiliavgvplsskglepraidldylkrkeflelkasddayrykfehselkksellLpskevTtieekenIdfkPskeil.. 363 +r slcvGG++Tpil avg+++ ++++ p++idldylk k+fle+k+++d+y +kf+h+el+ s l Lp++++T +++++nI+f+Ps ++l Chr1_6 4776439 LgIRRSLCVGGLLTPILGAVGMEFGTPDVFPKFIDLDYLKGKDFLEKKTPADRYLFKFNHPELGPSLLPLPCENQTLVKTRRNINFMPSPSVLni 4776533 *********************************************************************************************** PP ATHILA 364 .............sappedeaelteeaeeedvdeededeeaelekfdtsqyhFeehappareskslsevhkklsklqkwckkqdkllkkllkkik 445 +a++e+++++t++++e++ ++e+++e+ e+e +++q+h e+a ++++++++evhkkl++l++++++++k++k+++kk++ Chr1_6 4776534 niggdredqpeysQADYEQQEYFTQDDYEQQTEFEQQSEQPEQEANEFEQAHQRENA--DQGGDEIAEVHKKLGVLEELGNLHSKTVKGFKKKMR 4776626 ************999***************************************999..************************************ PP ATHILA 446 klkkklkssssq 457 +++k+lks+++q Chr1_6 4776627 TMNKSLKSMAAQ 4776638 *********998 PP == domain 2 score: 49.4 bits; conditional E-value: 3.1e-16 ATHILA 111 lelelyqesedrekeeeglGyitFkvkgveyslsikq.leeifgFpskkgikpkfdkeeLksLwatiask 179 l++e+y++++d e++++glG++tF+v++++y+lsi + lee+fgF s+kg+kp+fdkeeLk+Lwati+++ Chr1_6 4906318 LQVEMYEGLTDFELDTMGLGFLTFSVDEQRYQLSI-K*LEELFGFTSGKGTKPRFDKEELKDLWATIGNN 4906386 89********************************9.9999****************************97 PP == domain 3 score: 219.1 bits; conditional E-value: 1e-67 ATHILA 276 slcvGGvvTpiliavgvplsskglepraidldylkr.keflelkasddayrykfehselkksellLpskevTtieekenIdfkPskeil...sap 366 +lcvGGvv pil a+gvpl+++gl+pr++dld+l r +efle+++++d++ry+fehs+++ +++lLp+ ++T+i e++nIdfkP+ e l ++p Chr1_6 4906484 ALCVGGVVMPILEACGVPLKEPGLAPRMMDLDHL-R*CEFLEFDMVGDFHRYRFEHSSIRIANILLPCIDATRILEQRNIDFKPALEDLyfeGSP 4906577 8********************************9.8889******************************************************** PP ATHILA 367 pedeaelteeaeeedvdeededeeaelekfdtsqyhFeehappareskslsevhkklsklqkwckkqdkllkkllkkikklkkklkssssqt 458 +++e+++te+ ++edvde+d+ +ea fdts+yhF+eh+ppareskslse h+++sklqkwckkqdkll+k+l++i++lk+k+++sss+t Chr1_6 4906578 QTEEISHTEGPTKEDVDETDDVDEAV---FDTSMYHFSEHIPPARESKSLSESHRNNSKLQKWCKKQDKLLAKCLRAIQFLKDKISCSSSTT 4906666 ***********************999...************************************************************986 PP == domain 4 score: 554.3 bits; conditional E-value: 2.1e-169 ATHILA 1 trreeiargkrvveseeevieEdveveyepepvrrrtkelkkkdeltpeeYykllkelefegTryphketlaeLglledvdylf.kkakletfms 94 +r++eiargkr++++++e+i+Ed e+ y+pe++rr+tk+l+k d l++eeY++l+k +ef++Tryp+++tla+Lglledv++l+ + ++l+t+m+ Chr1_6 5119637 RRKAEIARGKRAITERYELIDEDPEDVYMPEHTRRATKLLHKTDVLPAEEYIRLFKLNEFCSTRYPCSTTLAQLGLLEDVQHLY*S-CHLDTLMA 5119730 589******************************************************************************99777.9******* PP ATHILA 95 ypyeaykeetveflstlelelyqesedrekeeeglGyitFkvkgveyslsikqleeifgFps.kkgikpkfdkeeLksLwatiasklplnsarsK 188 ypy+ayk+et++flstl++elyq+++++e+++eglG+++F+v+g+ey+lsik+le +fgFps g+kpk+d+eeLk+Lw+ti+s++plns+rsK Chr1_6 5119731 YPYVAYKDETIQFLSTLQVELYQGMTSDELDCEGLGFLKFSVYGHEYRLSIKRLEGLFGFPS*T-GTKPKYDREELKDLWITIGSSVPLNSSRSK 5119824 *************************************************************665.89**************************** PP ATHILA 189 snqirspvirylqrsiAnvlfsrestgtvtnselelldqaLkeiLrrtkdgrklkgdlndtslsvvLldhLlsYreyaatikkk.lrGslcvGGv 282 snqir pviry+qrsiAnvl+sre+ gtvtns +e++++aLk++L +tk+g++l+g+ ndt+lsv+Ll+hL++Y+++a+++++k +rG+lc+GGv Chr1_6 5119825 SNQIRTPVIRYFQRSIANVLYSREIIGTVTNSYMEMIAMALKGTLCQTKNGMSLQGEINDTPLSVLLLIHLCGYKSWAVSNNHKrARGALCIGGV 5119919 *********************************************************************************************** PP ATHILA 283 vTpiliavgvplsskglepraidldylkrkeflelkasddayrykfehselkksellLpskevTtieekenIdfkPskeil...sappedeaelt 374 vTpilia+gvp++s+glepra+d+++l+++efle++++dd++r++fehs+++++++lLps+evT i+e++nIdf+P+ +l +a+p de++l Chr1_6 5119920 VTPILIACGVPITSNGLEPRAMDIEHLRHCEFLEFAMVDDLHRFRFEHSTDRRASILLPSPEVTWIIEGDNIDFRPEVGRLyyeNAQPLDEDDLL 5120014 ************************************************************************************9********** PP ATHILA 375 eeaeeedvdeededeeaelekfdtsqyhFeeha 407 ee ++ d++ ed+ +e fdts+yhF e + Chr1_6 5120015 EETAS---DGMVEDRAVE---FDTSMYHFGECT 5120041 ****9...**********...********9976 PP == domain 5 score: 241.0 bits; conditional E-value: 2.2e-74 ATHILA 234 rrtkdgrklkgdlndtslsvvLldhLlsYreyaatikkklrGslcvGGvvTpiliavgvplsskglepraidldylkr.keflelkasddayryk 327 rrtk++++l+gdln++++++ Ll+hL++Yr++a lc+GGvvTpil a+gvpl+++gl+pr++dld+l r +efle+++++d++ y+ Chr1_6 5121054 RRTKGKNVLRGDLNNAPPVMPLLIHLCGYRKWA----------LCMGGVVTPILEACGVPLKEPGLAPRMMDLDHL-R*CEFLEFDMVGDFHGYR 5121137 99*****************************95..........9*******************************9.8889************** PP ATHILA 328 fehselkksellLpskevTtieekenIdfkPskeil...sappedeaelteeaeeedvdeededeeaelekfdtsqyhFeehappareskslsev 419 fehs+++ +++lLp ++T+i e++nI+fkP+ e l ++pp++e+++te+a++edvde+d+++ea+ fdts+yh +eh+pp re+kslse+ Chr1_6 5121138 FEHSSIRIANILLPYIDATRILEGRNINFKPALEDLyfeGSPPTEEISHTEGATTEDVDETDDIDEAD---FDTSMYHLSEHIPPTRERKSLSEA 5121229 ********************************************************************...************************ PP ATHILA 420 hkklskl.qkwckkqdkllkkllkkikklkkklkssssqt 458 h+++skl + wckkqdkll+k+l++i +lk+k+++sss+t Chr1_6 5121230 HRNNSKL*K-WCKKQDKLLAKCLRAITFLKNKISCSSSTT 5121268 *****9888.***************************986 PP == domain 6 score: 315.5 bits; conditional E-value: 5.7e-97 ATHILA 200 lqrsiAnvlfsrestgtvtnselelldqaLkeiLrrtkdgrklkgdlndtslsvvLldhLlsYreyaatikkk.lrGslcvGGvvTpiliavgvp 293 +qr++Anv ++re+++tvtn+++e+ld+aL ++Lr+tkdg+ +kgd+ndt++s++Ll+hL+sYr++++ + kk ++ +lc+GGvvTpil ++vp Chr1_6 5186304 FQRAMANVPYAREISATVTNQDMETLDLALLSFLRYTKDGKTMKGDTNDTPPSMYLLNHLCSYRGWTMANGKKnAKAALCIGGVVTPILLSCNVP 5186398 8********************************************************************************************** PP ATHILA 294 lsskglepraidldylkrkeflelkasddayrykfehselkksellLpskevTtieekenIdfkPskeilsappedeaelteeaeeedvdeeded 388 l ++ ++pr+id+ +lk +++e+k d++y +kf+h++++++++lLp +e+Tti+ ++nIdf+P++ei + + + + ++e+v++++++ Chr1_6 5186399 LRPDPIQPRWIDIAHLKLAHVIEHKVYDERYAFKFDHPSTGEATILLPFSEMTTITGRDNIDFSPPQEII----HAVVGRSASRNAEEVEGQSDN 5186489 **********************************************************************....9999999999*********** PP ATHILA 389 eeaelekfdtsqyhFeehappareskslsevhkklsklqkwckkqdkllkkllkkikklkkklkssssq 457 ee+++e++d s+yhFeeh+pp+resksl e+h+kls++q+wck+qdk+++k++k+i++++k+++ ++s+ Chr1_6 5186490 EETNWENYDKSRYHFEEHKPPSRESKSLDEAHQKLSLTQRWCKFQDKIIHKCVKAIDNMHKAISFTTST 5186558 ***************************************************************998876 PP == domain 7 score: 162.5 bits; conditional E-value: 1.5e-50 ATHILA 2 rreeiargkrvveseeevieEdveveyepepvrrrtk....elkkkdeltpee.YykllkelefegTryphketlaeLglledvdylfkkaklet 91 ++++i gk+ v ++ e+++Ed e e + + +t+ + ++ ++ + Yykllk++ef+gT+yph+et+++Lg+++dvdy+fk+++l++ Chr1_6 5195043 NKADITQGKKPVGRRLELVDEDSEEEMASSKEDDQTEkggdDDLESEKCATRN*YYKLLKRNEFLGTQYPHPETMERLGIYDDVDYMFKQCSLNI 5195137 6899********************97666555444441110455556677777****************************************** PP ATHILA 92 fmsypyeaykeetveflstlelelyqesedrekeeeg.lGyitFkvkgveyslsikqleeifgFpskkgikpkfdkeeLk 170 +m++p+e+y+eet++fls+++l ly+e ed+e++ +g lGy++F+v++vey+l+i++l+ ++gFp++k+++++fdk+eL Chr1_6 5195138 HMFRPMEGYEEETIQFLSSVQLLLYGEPEDDEIRPDGsLGYLEFCVYDVEYRLPIEHLDLMYGFPNGKDTSHRFDKRELS 5195217 ******************************************************************************97 PP == domain 8 score: 606.9 bits; conditional E-value: 2.3e-185 ATHILA 1 trreeiargkrvveseeevieEdveveyepepvrrrtkelkkkdeltpeeYykllkelefegTryphketlaeLglledvdylfkkakletfmsy 95 +r++eiargkr++++++e+i+ d+e+ey+pe+++r+tk+l+k+d l++eeY++l+k +ef++Tryp+++tla+Lgll+dv++l+++++l+t+m+y Chr1_6 5414839 RRKAEIARGKRAMTERYELIDKDLEDEYMPEHTHRATKLLHKPDALPAEEYIRLFKLNEFCSTRYPCSTTLAQLGLLDDVQHLYQSCHLDTLMAY 5414933 589******************************************************************************************** PP ATHILA 96 pyeaykeetveflstlelelyqesedrekeeeglGyit...Fkvkgveysls.ikqleeifgFpskkgikpkfdkeeLksLwatiasklplnsar 186 py+ay++et++flstl++elyq+++++e+++eg ++ F+v+g+ey+ ik+le +fgFps++g+kpk d+eeLk+Lw+ti+s++plns+r Chr1_6 5414934 PYVAYEDETIQFLSTLQVELYQGMTSDELDCEG---LRfl*FSVYGHEYR-L*IKRLEGLFGFPSGTGTKPKDDREELKDLWITIGSSVPLNSSR 5415024 *********************************...6623558******8.35589*************************************** PP ATHILA 187 sKsnqirspvirylqrsiAnvlfsr.estgtvtnselelldqaLkeiLrrtkdgrklkgdlndtslsvvLldhLlsYreyaatikkk.lrGslcv 279 sKsnqirspvi y+qrsiAnvl+ e+tgtvtns++e++++aLk++Lr+tk+g++l+g+ ndt+lsv+Ll+hL++Y+++a+++++k +rG+lc+ Chr1_6 5415025 SKSNQIRSPVISYFQRSIANVLY-S*EITGTVTNSDMEMIAMALKGTLRQTKNGMSLQGEINDTPLSVLLLIHLCGYKSWAVSNNHKrARGALCI 5415118 ***********************.4449******************************************************************* PP ATHILA 280 GGvvTpiliav.gvplsskglepraidldylkrkeflelkasddayrykfehselkksellLpskevTtieekenIdfkPskeil...sappede 370 GGvvTpilia+ + + s+glepra+d+++l+++efle++++dd++r++fehs++k++++lLps+evT+i+e++nIdf+P+ +l +app de Chr1_6 5415119 GGVVTPILIAC*VL-IISAGLEPRAMDIEHLRHCEFLEFAMVDDFHRFRFEHSTDKRASILLPSPEVTRIIEGDNIDFRPEVGCLyyeNAPPLDE 5415212 **********9976.6789**************************************************************************** PP ATHILA 371 aelteeaeeedvdeededeeaelekfdtsqyhFeehappareskslsevhkklsklqkwckkqdkllkkllkkikklkkklkssssqt 458 ++l eea++ d++ded+ +e fdts yhF eh+p aresksl+e+hk++sklqkwckkqdkll+k++k+ik l++kl++sss+t Chr1_6 5415213 DDLLEEAAS---DGMDEDRAVE---FDTSVYHFGEHVPLARESKSLTEAHKNNSKLQKWCKKQDKLLAKCFKTIKLLTDKLSCSSSTT 5415294 *********...**********...************************************************************986 PP >> Transposase_21 Transposase family tnp2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 298.5 0.1 2.4e-92 6.2e-92 2 220 .. 4559342 4559562 .. 4559341 4559566 .. 0.97 2 ! 301.9 0.0 2.2e-93 5.7e-93 2 225 .. 5139994 5140217 .. 5139993 5140218 .. 0.99 3 ! 293.3 0.2 9.3e-91 2.4e-90 3 225 .. 5177166 5177387 .. 5177164 5177388 .. 0.98 4 ! 308.3 0.0 2.4e-95 6.2e-95 2 220 .. 5561976 5562196 .. 5561975 5562200 .. 0.97 5 ! 312.5 0.1 1.3e-96 3.4e-96 2 223 .. 5615873 5616097 .. 5615872 5616100 .. 0.96 Alignments for each domain: == domain 1 score: 298.5 bits; conditional E-value: 2.4e-92 Transposase_21 2 emrwhkeerkkdgklrhpaDgeaWkkfdekypeFakdaRnvrlgLstDGfnPfgklsssyslWpvllvpynlppelcmkeenillsl 88 +mrwh+e+++++g+++hp+D+++W+ f+e +p+Fa+++Rnv+lgL+tDGfn fg+ s+++slWpv+l+pynlpp +cm++++++l++ Chr1_6 4559342 TMRWHAEHQTNEGEMNHPSDAAEWRYFQELHPRFAEEPRNVYLGLCTDGFNQFGM-SRNHSLWPVILTPYNLPPGMCMNTKYLFLTI 4559427 69***************************************************87.888**************************** PP Transposase_21 89 lipGpkqpgkdidvflepLieeLkeLweeGvetyDaskkenFtlraallwtinDlpalgnlsgqstkGklacpiCleetkskrlkkg 175 l + p++p+ ++dvfl+pLieeLkeLw++Gv++yD+s ++nF+l+a+llwti D+pa+++lsg++t+Gkl+cp+ +e+tks++l +g Chr1_6 4559428 LNSRPNHPRGSLDVFLQPLIEELKELWSTGVDAYDVSLSQNFNLKAVLLWTIRDFPAYSMLSGWTTHGKLSCPVSMESTKSIYLPNG 4559514 *************************************************************************************** PP Transposase_21 176 kkvvylg.hrrflpakhpfrknkksfdgk..eeeeeapkelsgeevle 220 +k+++++ hrrflp+ hp r+n+k+f + +++e +p++l++e+v+ Chr1_6 4559515 RKTCWFDcHRRFLPHGHPSRRNRKDFLKGrdASSEYPPESLTEEQVYY 4559562 **************************9886677888999999999875 PP == domain 2 score: 301.9 bits; conditional E-value: 2.2e-93 Transposase_21 2 emrwhkeerkkdgklrhpaDgeaWkkfdekypeFakdaRnvrlgLstDGfnPfgklsssyslWpvllvpynlppelcmkeenillsl 88 +m+wh+++ ++dgkl+hp Dg+aWk+fd+kypeFa+d+RnvrlgL+tDGfnPfg++s +ys+Wpv+l+pyn+pp++ mk++ ls+ Chr1_6 5139994 HMKWHATSSNNDGKLQHPRDGKAWKAFDQKYPEFASDPRNVRLGLATDGFNPFGTMSVNYSIWPVILFPYNFPPWMAMKKTSTTLSM 5140080 8************************************************************************************** PP Transposase_21 89 lipGpkqpgkdidvflepLieeLkeLweeGvetyDaskkenFtlraallwtinDlpalgnlsgqstkGklacpiCleetkskrlkkg 175 +ipG++ +g+didv+l+pLi+eLkeLw+ G++t Das+k++F++raa++wti+D+p+lgnlsg+ t + +cp C+ + + rl++g Chr1_6 5140081 VIPGKHMSGNDIDVYLQPLIKELKELWSVGIKTLDASTKQTFDMRAAIMWTISDFPGLGNLSGWNTYTTATCPSCNFDGSGERLRHG 5140167 *************************************************************************************** PP Transposase_21 176 kkvvylghrrflpakhpfrknkksfdgkeeeeeapkelsgeevleelkkl 225 kk++++ghrrflp++h +r++k +fdgk e++++p++lsg+ v+++l+k+ Chr1_6 5140168 KKNCFMGHRRFLPQDHGYRQDKINFDGKIETRSSPTTLSGSTVIHQLEKV 5140217 *********************************************99986 PP == domain 3 score: 293.3 bits; conditional E-value: 9.3e-91 Transposase_21 3 mrwhkeerkkdgklrhpaDgeaWkkfdekypeFakdaRnvrlgLstDGfnPfgklsssyslWpvllvpynlppelcmkeenillsll 89 + wh ++ ++dg+ rhp+D+ +W +++ek+peFa+d+Rn+rlgLstDG+nPf+ ++++ys+W+vllv+yn++p++cmk eni+l++l Chr1_6 5177166 LCWHFTNASEDGT-RHPVDSLTWVHVNEKWPEFAADPRNLRLGLSTDGMNPFSIQNTKYSTWHVLLVNYNMAPTECMKVENIMLTML 5177251 67*******9996.9************************************************************************ PP Transposase_21 90 ipGpkqpgkdidvflepLieeLkeLweeGvetyDaskkenFtlraallwtinDlpalgnlsgqstkGklacpiCleetkskrlkkgk 176 ipGp++p+++idv+l+pLi++Lk+Lw+eG+ +yD++kke+Ftlra+llw+i+D+palg+l+g+++kGk ac++C ++t +++lk + Chr1_6 5177252 IPGPTAPSNNIDVYLQPLIDDLKDLWNEGMVVYDSFKKESFTLRAMLLWSITDYPALGTLVGCKVKGKQACKVCGKDTPHRWLKFSC 5177338 *************************************************************************************** PP Transposase_21 177 kvvylghrrflpakhpfrknkksfdgkeeeeeapkelsgeevleelkkl 225 k+vy+g+r+ l+ hp+r++k +fd+++e +a++ +sg e++e lk++ Chr1_6 5177339 KHVYMGNRKRLRPAHPYRRKKVWFDNTVEVGTANRIQSGAEIFECLKDF 5177387 ********************************************99986 PP == domain 4 score: 308.3 bits; conditional E-value: 2.4e-95 Transposase_21 2 emrwhkeerkkdgklrhpaDgeaWkkfdekypeFakdaRnvrlgLstDGfnPfgklsssyslWpvllvpynlppelcmkeenillsl 88 +mrwh+e+++k+g+++h +D+++W+ f+ +peFa+++Rnv+lgL+tDGfnPfg+ s+++slWpv+l+pynlpp +cm++e+++l++ Chr1_6 5561976 AMRWHAEHQSKEGEMNHLSDAAEWRYFQGLHPEFAEEPRNVYLGLCTDGFNPFGM-SRNHSLWPVILTPYNLPPGMCMNTEYLFLTI 5562061 7****************************************************87.888**************************** PP Transposase_21 89 lipGpkqpgkdidvflepLieeLkeLweeGvetyDaskkenFtlraallwtinDlpalgnlsgqstkGklacpiCleetkskrlkkg 175 l +Gp++p++++dvfl+pLieeLke w++Gv++yD+s ++nF+l+a+llwti+D+pa+++l g++t+Gkl+cp+C+e+tks++l +g Chr1_6 5562062 LNSGPNHPRASLDVFLQPLIEELKEFWSTGVDAYDVSLSQNFNLKAVLLWTISDFPAYNMLLGWTTHGKLSCPVCMESTKSFYLPNG 5562148 *************************************************************************************** PP Transposase_21 176 kkvvylg.hrrflpakhpfrknkksfdgk..eeeeeapkelsgeevle 220 +k+++++ hrrflp+ hp r+n+k+f + +++e +p++l+ge+v+ Chr1_6 5562149 RKTCWFDcHRRFLPHGHPSRRNRKDFLKGrdASSEYPPESLTGEQVYY 5562196 **************************988667788899*****99975 PP == domain 5 score: 312.5 bits; conditional E-value: 1.3e-96 Transposase_21 2 emrwhkeerkkdgklrhpaDgeaWkkfdekypeFakdaRnvrlgLstDGfnPfgkl.sssyslWpvllvpynlppelcmkeenills 87 +mrwh+++++ +g+++hp+D++aWk+f++ yp Fa+++Rnv+lgL+tDGf+Pf+ + ++yslWpv+l+pynlpp++cm++e+++l+ Chr1_6 5615873 KMRWHAQHTTAEGEITHPSDAKAWKHFQTVYPYFANECRNVYLGLCTDGFSPFDLSgRRQYSLWPVILTPYNLPPDMCMQSEFLFLT 5615959 7****************************************************9762679*************************** PP Transposase_21 88 llipGpkqpgkdidvflepLieeLkeLweeGvetyDaskkenFtlraallwtinDlpalgnlsgqstkGklacpiCleetkskrlkk 174 +l+pGpk+p++ +dvfl+pLi+eLk+Lw eGv+t+D s+k+nF++r++l+wti+D+pa+g+lsg++t+G+l+cp+C+ +t++++lk+ Chr1_6 5615960 ILVPGPKHPKRALDVFLQPLIHELKKLWYEGVHTFDYSSKQNFNMRVVLMWTISDFPAYGMLSGWTTHGRLSCPYCMGRTDAFQLKR 5616046 *************************************************************************************** PP Transposase_21 175 gkkvvylg.hrrflpakhpfrknkksfdgk.eeeeeapkelsgeevleelk 223 g+k ++++ hrrfl+ +hp+r+nkk f+++ +++ +p+ +sg++++e+++ Chr1_6 5616047 GRKPCWFDcHRRFLSLHHPYRRNKKLFRKNkVVRLPPPSYISGTDLFEQID 5616097 ******************************66666778888*****99987 PP >> rve Integrase core domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 82.0 0.1 4.1e-26 1.1e-25 2 117 .. 2863820 2863933 .. 2863819 2863935 .. 0.98 2 ! 82.0 0.1 4.1e-26 1.1e-25 2 117 .. 2875906 2876019 .. 2875905 2876021 .. 0.98 3 ! 94.8 0.0 4.4e-30 1.1e-29 3 117 .. 4249380 4249495 .. 4249378 4249497 .. 0.98 4 ! 70.4 0.1 1.6e-22 4e-22 6 117 .. 4392342 4392452 .. 4392341 4392454 .. 0.90 5 ! 82.8 0.0 2.3e-26 5.8e-26 2 116 .. 4466830 4466945 .. 4466829 4466948 .. 0.97 6 ! 46.2 0.0 5.1e-15 1.3e-14 26 119 .. 4681503 4681595 .. 4681493 4681596 .. 0.97 7 ! 94.7 0.1 4.8e-30 1.2e-29 5 119 .. 5431611 5431727 .. 5431607 5431728 .. 0.94 8 ! 52.8 0.0 4.6e-17 1.2e-16 7 117 .. 5490701 5490811 .. 5490697 5490814 .. 0.90 9 ! 71.6 0.2 6.7e-23 1.7e-22 3 118 .. 5531270 5531384 .. 5531268 5531386 .. 0.96 10 ! 61.3 0.0 1e-19 2.6e-19 2 117 .. 5748294 5748408 .. 5748293 5748411 .. 0.98 11 ! 72.3 0.0 4.2e-23 1.1e-22 3 118 .. 5801915 5802030 .. 5801913 5802032 .. 0.93 12 ! 39.1 0.0 8.1e-13 2.1e-12 3 119 .. 5951902 5952018 .. 5951900 5952019 .. 0.92 Alignments for each domain: == domain 1 score: 82.0 bits; conditional E-value: 4.1e-26 rve 2 atrpgelwqiDvtpgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhk 96 trp+e + +Dv+ +i s+++++y ++++d f+r+++ ++lk++s++++++ ++++++e+r++ ++ +++sDng ef+ a+ ++++++gi h Chr1_6 2863820 STRPLEYIYSDVWSSPILSHDNYRYYVIFVDHFTRYTWLYPLKQKSQVKETFITFKNLLENRFQTRIGTFYSDNGGEFV--ALWEYFSQHGISHL 2863912 689****************************************************************************..9************* PP rve 97 ftrpyrpqdngkvErfnrtlk 117 +++p++p+ ng+ Er++r++ Chr1_6 2863913 TSPPHTPEHNGLSERKHRHIV 2863933 *******************96 PP == domain 2 score: 82.0 bits; conditional E-value: 4.1e-26 rve 2 atrpgelwqiDvtpgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhk 96 trp+e + +Dv+ +i s+++++y ++++d f+r+++ ++lk++s++++++ ++++++e+r++ ++ +++sDng ef+ a+ ++++++gi h Chr1_6 2875906 STRPLEYIYSDVWSSPILSHDNYRYYVIFVDHFTRYTWLYPLKQKSQVKETFITFKNLLENRFQTRIGTFYSDNGGEFV--ALWEYFSQHGISHL 2875998 689****************************************************************************..9************* PP rve 97 ftrpyrpqdngkvErfnrtlk 117 +++p++p+ ng+ Er++r++ Chr1_6 2875999 TSPPHTPEHNGLSERKHRHIV 2876019 *******************96 PP == domain 3 score: 94.8 bits; conditional E-value: 4.4e-30 rve 3 trpgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhk 96 +p++++++D + p ++ s++g++y ++++dd+sr+ ++++l+++s+ e+v+ ++++ve++ + ++k+++sD g ef+s++++a ++++gi h+ Chr1_6 4249380 LHPLDRIHCDLWgPSPVVSNQGFKYYAIFVDDYSRYSWFYPLRNKSDFESVFISFQKMVENQLNTKIKVFQSDGGGEFVSNSLKAHFSKHGIHHR 4249474 69********************************************************************************************* PP rve 97 ftrpyrpqdngkvErfnrtlk 117 ++py+pq+ng++Er++r+l Chr1_6 4249475 ISCPYTPQQNGLAERKHRHLV 4249495 *******************95 PP == domain 4 score: 70.4 bits; conditional E-value: 1.6e-22 rve 6 gelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadllerave...rrggvepkrllsDngseftskafeallkelgirhk 96 ++l+++Dv+ p+r ps g +y+lt++dd+sr ++++ +++++++ +l++++++ r++g+++k ++sDng+ef+ ++++++ +gi h+ Chr1_6 4392342 FSLIHGDVWgPYRTPSTTGAVYFLTLVDDYSRSVWTYLMSSKTEV---SQLIHNICAts*RQFGKQVKAFRSDNGTEFM--CLTSYFQTHGILHQ 4392431 579***************************************555...555555555347799999*************..59************ PP rve 97 ftrpyrpqdngkvErfnrtlk 117 +++ +pq+ng vEr++r++ Chr1_6 4392432 TSCIDTPQQNGRVERKHRHVL 4392452 ******************986 PP == domain 5 score: 82.8 bits; conditional E-value: 2.3e-26 rve 2 atrpgelwqiDvt...pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgi 93 atrp+e++++D + p++ s++g++y +++id +srf+++++lk +s+ ++++ +++ +ve++ + ++ ++++D g efts+++++ l++ gi Chr1_6 4466830 ATRPLERIHCDLWgp*PIK--SNQGFSYYAVFIDNYSRFCWFYPLKLKSDFTHTFTVFQDMVENQYQTKIGSFQCDGGGEFTSRKLTDHLQQCGI 4466922 689****************..8888********************************************************************** PP rve 94 rhkftrpyrpqdngkvErfnrtl 116 ++ ++py++q+ng++Er++r++ Chr1_6 4466923 KQLISCPYTSQQNGLAERKHRHI 4466945 *********************98 PP == domain 6 score: 46.2 bits; conditional E-value: 5.1e-15 rve 26 ylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkftrpyrpqdngkvErfnrtlkee 119 +++++d+ ++ +++ a+++++ a+++++ + + + +gv p +++sD+ s fts+ ++a+ +e+g++++++++y+pq+ g+ Er+++tl+++ Chr1_6 4681503 AIWVIVDRLTKSAHFLAIRKTDGAAVLTKKYVSEIVKLHGV-PVSIVSDRDSKFTSAFWRAFQAEMGTKVQMSTAYHPQTDGQSERTIQTLEDM 4681595 589**************************************.*************************************************997 PP == domain 7 score: 94.7 bits; conditional E-value: 4.8e-30 rve 5 pgelwqiDvt..pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkf 97 ++ ++ D + p ps gk+y+l +idd++r+++ ++lk+++++++ ++ ++ +ve++ ++++k l++Dng ef++++f +++ke+gi+ ++ Chr1_6 5431611 ALSYVHADLWgsPNVTPSISGKQYFLSIIDDKTRKVWLYFLKSKDETFDKFCEWKSLVENQVNKKVKCLRTDNGLEFCNSRFDSYCKEHGIERHR 5431705 578899999988555678888************************************************************************** PP rve 98 trpyrpqdngkvErfnrtlkee 119 t++y+pq+ng++Er+nrt++e+ Chr1_6 5431706 TCTYTPQQNGVAERMNRTIMEK 5431727 *******************986 PP == domain 8 score: 52.8 bits; conditional E-value: 4.6e-17 rve 7 elwqiDvt.pgripskgg.kaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkftr 99 +w++Dv+ p++ +++++ + ll+++d +++i a a ++ + ++v d+l++ + ++g p ++++Dng+++ts++++a++ +++ir+++++ Chr1_6 5490701 MKWSMDVVgPMEASGGKKkLKNLLVLTDYSTKWIEAKAFQQV-TEKQVEDFLWENIVCQHGI-PYEIITDNGTNLTSRKIKAFCDKWKIRLTTST 5490793 58******99994444446789********************.9999999999999999999.******************************** PP rve 100 pyrpqdngkvErfnrtlk 117 p+ pq ng++E n+ + Chr1_6 5490794 PHYPQGNGQAEAANKAIL 5490811 **************9876 PP == domain 9 score: 71.6 bits; conditional E-value: 6.7e-23 rve 3 trpgelwqiDvt.pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhk 96 ++ ++ ++ Dv+ p++ s g +y+lt++dd+sr ++++ + +s+++++++ + +++ r++++++k+++s ng+ef+ +++++++e gi h+ Chr1_6 5531270 EECFSFIHYDVWgPYKHASSCGAHYFLTIVDDHSRAVWIHLMLAKSEVASLLQQFIAMASRQFNKQVKTVRSNNGTEFM--SLKSYFAERGIVHQ 5531362 677899***************************************9*9999999999**********************..69************ PP rve 97 ftrpyrpqdngkvErfnrtlke 118 +++y+ q+ng vEr++r++ + Chr1_6 5531363 ISCVYTHQQNGRVERKHRHILN 5531384 *******************975 PP == domain 10 score: 61.3 bits; conditional E-value: 1e-19 rve 2 atrpgelwqiDvtpgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhk 96 +++p+ +++D+++g + ++ gk +++++d+fs+++++++++++++a ++a+l+ r v r +g pk+++sD+ + f s +++l ++lg+++ Chr1_6 5748294 PSHPWNDISMDFVVGLPRTRTGKDSIFVVVDRFSKMAHFIPCHKTDDAIHIANLFFREVVRLHGM-PKTIVSDRDTKFLSYFWKTLWSKLGTKLL 5748387 689**********9999************************************************.***************************** PP rve 97 ftrpyrpqdngkvErfnrtlk 117 f+++++pq+ g+ E nrtl Chr1_6 5748388 FSTTCHPQTDGQTEVVNRTLS 5748408 *******************96 PP == domain 11 score: 72.3 bits; conditional E-value: 4.2e-23 rve 3 trpgelwqiDvtpgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgirhkf 97 + p+e++++D+++ ++ s+ g +y ++++d fs+fi++++l+ +s+++ + + ++v+ +++ +k l++Dng ef ++++ ++++++gi+ +f Chr1_6 5801915 SSPFEIIHSDIWTSPVTSVSGIKYYVIFLDQFSHFIWIYPLRYKSEVFKKFLHFFNFVKTQFQTPIKALQCDNGGEFNNRQILDFFSSNGIQSRF 5802009 689*****************************************777776666666999999999****************************** PP rve 98 trpyrpqdngkvErfnrtlke 118 ++py++q+ng +Er+ rt+++ Chr1_6 5802010 SCPYTSQQNGRAERTLRTINN 5802030 ******************976 PP == domain 12 score: 39.1 bits; conditional E-value: 8.1e-13 rve 3 trpgelwqiDvt...pgripskggkaylltaiddfsrfivaealkdessaetvadlleraverrggvepkrllsDngseftskafeallkelgir 94 + +++++++D++ p ri+sk + +++++d+ ++ ++++a++d++ a+ +a + r +g +++s + + f+sk ++a+ k+lg+r Chr1_6 5951902 EWKWDHITMDFVtglPTRIKSKH--NAVWVVVDRLTKSAHFMAISDKDGAKIIAEKYIDEIVRLHGI-LVSIVSYRDTRFMSKFWKAFQKALGTR 5951993 67899*******85555555555..**********************99999999999999999999.89************************* PP rve 95 hkftrpyrpqdngkvErfnrtlkee 119 + + +y+pq+ g+ Er+++tl+++ Chr1_6 5951994 VNLSIAYHPQTDGQPERMIQTLEDM 5952018 **********************997 PP >> Retrotrans_gag Retrotransposon gag protein # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 43.1 0.0 3.8e-14 9.6e-14 1 95 [. 3819151 3819242 .. 3819151 3819243 .. 0.97 2 ! 58.7 0.1 5.1e-19 1.3e-18 1 93 [. 4633398 4633489 .. 4633398 4633492 .. 0.98 3 ! 74.8 0.2 5.1e-24 1.3e-23 2 96 .] 4803120 4803215 .. 4803119 4803215 .. 0.98 4 ! 60.0 0.0 2.1e-19 5.3e-19 1 94 [. 4860805 4860897 .. 4860805 4860899 .. 0.98 5 ! 60.1 0.0 1.9e-19 4.8e-19 1 94 [. 4864877 4864969 .. 4864877 4864971 .. 0.98 6 ! 19.8 0.2 7.4e-07 1.9e-06 1 69 [. 4895757 4895823 .. 4895757 4895830 .. 0.93 7 ! 23.4 0.6 5.3e-08 1.3e-07 12 94 .. 4965665 4965748 .. 4965661 4965749 .. 0.92 8 ! 64.0 0.3 1.2e-20 3e-20 2 96 .] 4968978 4969076 .. 4968977 4969076 .. 0.97 9 ! 41.5 0.0 1.3e-13 3.2e-13 1 94 [. 4991881 4991973 .. 4991881 4991975 .. 0.94 10 ! 45.0 0.1 9.9e-15 2.5e-14 1 95 [. 5068974 5069065 .. 5068974 5069066 .. 0.98 11 ! 58.6 0.0 5.8e-19 1.5e-18 1 94 [. 5184956 5185048 .. 5184956 5185050 .. 0.98 12 ! 44.8 0.5 1.2e-14 3e-14 2 90 .. 5295114 5295206 .. 5295113 5295212 .. 0.88 13 ! 42.9 0.0 4.5e-14 1.1e-13 1 93 [. 5385297 5385388 .. 5385297 5385391 .. 0.97 14 ! 41.9 0.0 9.2e-14 2.4e-13 1 94 [. 5494122 5494214 .. 5494122 5494216 .. 0.96 15 ! 53.5 0.1 2.2e-17 5.6e-17 2 96 .] 5637892 5637987 .. 5637891 5637987 .. 0.95 16 ! 35.9 0.1 6.6e-12 1.7e-11 18 95 .. 6007343 6007417 .. 6007326 6007418 .. 0.87 Alignments for each domain: == domain 1 score: 43.1 bits; conditional E-value: 3.8e-14 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslr.QgtesvreYyerfktladqldevvteeak 86 kl+s sL+g+A++w+++l++ sid ++k+l++af k++ + ++d +e++l++l+ + +r Y++ fk+++ q+++ ++ a+ Chr1_6 3819151 KLFSESLSGPALTWFTQLEEGSID---NFKQLSTAFIKQYGYFIKSDVTEDHLWNLS*GADDPLRTYITAFKEIMVQVPN-LSDSAA 3819233 689*********************...9****************************9977*******************5.****** PP Retrotrans_gag 87 iekflaGLn 95 ++++ +GL+ Chr1_6 3819234 QSALKNGLW 3819242 *******97 PP == domain 2 score: 58.7 bits; conditional E-value: 5.1e-19 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 +l+++sL ++A+ w k+l+ +s+d +W+d+kkaf+++f++++r+++l++e++ ++Q ++es++e +erfk++ +q+++ ++++++ Chr1_6 4633398 RLFPFSLGDEAHLWEKTLLVDSVD---TWDDCKKAFLAKFFSNSRTARLRNEISGFNQkNSESFAEAWERFKRYSTQCPHhGFKKAS 4633481 5899********************...9*********************************************************** PP Retrotrans_gag 86 kiekflaG 93 +++++++G Chr1_6 4633482 LLSTLYRG 4633489 *******9 PP == domain 3 score: 74.8 bits; conditional E-value: 5.1e-24 Retrotrans_gag 2 lastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQgtesvreYyerfktladqlde.vvteeaki 87 la+++Leg+A+ w++s+ ar+++a +sW+d++ +f+++++ +e d++e+++ +l+Qg++svreY ++f++l+ ++ + +++++a++ Chr1_6 4803120 LAVHFLEGDAHLWWRSVTARRRQADMSWADFVAEFNAKYFLPEALDRMEARFLELTQGERSVREYDREFNRLLVYAGRgMEDDQAQM 4803206 89****************************************************************************999****** PP Retrotrans_gag 88 ekflaGLne 96 ++fl+GL++ Chr1_6 4803207 RRFLRGLRP 4803215 *******85 PP == domain 4 score: 60.0 bits; conditional E-value: 2.1e-19 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 +l+++sL ++A+ w k+l +si+ +W+d+kkaf+++f++++r+++l++e++ ++Q es++e +erfk + +q+++ ++t+++ Chr1_6 4860805 RLFPFSLGDKAHIWEKNLPHDSIT---TWDDCKKAFLSKFFSNARTARLRNEISGFSQkTGESFCEAWERFKGYTNQCSHhGFTKAS 4860888 5899********************...9*********************************************************** PP Retrotrans_gag 86 kiekflaGL 94 +++++++G+ Chr1_6 4860889 LLSTLYRGV 4860897 ********7 PP == domain 5 score: 60.1 bits; conditional E-value: 1.9e-19 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 +l+++sL ++A+ w k+l +si+ +W+d+kk+f+++f++++r+++l++e++ ++Q es++e +erfk + +q+++ ++t+++ Chr1_6 4864877 RLFPFSLGDKAHIWEKNLPHDSIT---TWDDCKKVFLSKFFSNARTARLRNEISGFSQkTGESFCEAWERFKGYTNQCPHhGFTKAS 4864960 5899********************...9*********************************************************** PP Retrotrans_gag 86 kiekflaGL 94 +++++++G+ Chr1_6 4864961 LLSTLYRGV 4864969 ********7 PP == domain 6 score: 19.8 bits; conditional E-value: 7.4e-07 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyer 69 kl++ sL +A swlk+l+a s + +W+ +k af+++f++++++++l+++l++++Q + e +++ + r Chr1_6 4895757 KLFPYSLAVEATSWLKQLKAGSLK---TWRSIKIAFLNNFYDDAKSEELRNKLSTFTQgPAEAFNDAWVR 4895823 578999999***************...9******************************999999998876 PP == domain 7 score: 23.4 bits; conditional E-value: 5.3e-08 Retrotrans_gag 12 kswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQgtesvreY.yerfktladqlde.vvteeakiekflaGL 94 ++w++s+v+r +d++ +W+ +kk+f ++++ +e d+le ++ sl Q ++++ + f++l+++l + +e++++++fl+GL Chr1_6 4965665 RAWWDSVVSRYRDQPITWEMFKKEFESKYFLPEACDRLELQFMSLEQ-GQKIAFA*EQIFTRLWRYLYNeRDDEAMMVRRFLRGL 4965748 79*********************************************.88999889999*********96777788999*****9 PP == domain 8 score: 64.0 bits; conditional E-value: 1.2e-20 Retrotrans_gag 2 lastsLegrAkswlkslvarsida....sesWkdlkkafrktflpserkdqleeelrslrQgtesvreYyerfktladqldevvtee 84 +++t++ + A+sw+++lv++++ + esW+++k +rk+f+ps+++++l+ +lr+l+Qg++ v+eYy++++tl+ ++d +++ e Chr1_6 4968978 VVATEFYDYALSWWDQLVTSRRCKqelpLESWSEMKAIMRKRFVPSHYHRELHLKLRNLTQGNRYVEEYYKEMETLMLRADISEDRE 4969064 78999****************9999********************************************************99999* PP Retrotrans_gag 85 akiekflaGLne 96 a +++fl GLn+ Chr1_6 4969065 ATMSRFLGGLNR 4969076 **********95 PP == domain 9 score: 41.5 bits; conditional E-value: 1.3e-13 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYye.rfktladqlde.vvtee 84 +l+++sL ++A+ w k+l +si+ +W+d+kkaf+++f++++r+++l++e++ ++Q es++e rfk + +q+++ ++t++ Chr1_6 4991881 RLFPVSLGDKAHIWEKNLPHDSIT---TWDDCKKAFLSKFFSNARTARLRNEISCFSQkTGESFCEA-W*RFKGYTNQCPHhGFTKA 4991963 5899********************...9******************************888888887.577**************** PP Retrotrans_gag 85 akiekflaGL 94 ++++++++G+ Chr1_6 4991964 SLLSTIYKGV 4991973 ********97 PP == domain 10 score: 45.0 bits; conditional E-value: 9.9e-15 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqldevvteeak 86 kl+s +L+g+A+ w+++l++ si ++++ + +f+k++ k+ + +++++l+Q ++e++r ++++fk ++++l++ ++++++ Chr1_6 5068974 KLFSKNLCGQALMWFTQLEPGSIS---NFNEVSAVFLKQYSILLDKSISDTDFWNLSQgRNETLRTFITKFKNVLSKLPR-ISQQSA 5069056 68999*******************...9***************************************************7.****** PP Retrotrans_gag 87 iekflaGLn 95 ++++++GL+ Chr1_6 5069057 LSALRKGLW 5069065 ********7 PP == domain 11 score: 58.6 bits; conditional E-value: 5.8e-19 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvteea 85 +l+++sL ++A+ w k+l + si+ +W+d+kkaf+++ ++++r+++l++e++ ++Q ++es++e +erfk + +++++ +++e++ Chr1_6 5184956 RLFPFSLGDKAHPWEKTLPQGSIT---TWDDCKKAFLAKLFSNSRTARLRNEISGFTQkQNESFCEAWERFKGYQTKCPHhGFKEAS 5185039 5899********************...9*********************************************************** PP Retrotrans_gag 86 kiekflaGL 94 +++++++G+ Chr1_6 5185040 LLSTLYRGV 5185048 ********7 PP == domain 12 score: 44.8 bits; conditional E-value: 1.2e-14 Retrotrans_gag 2 lastsLegrAkswlkslvarsida....sesWkdlkkafrktflpserkdqleeelrslrQgtesvreYyerfktladqldevvtee 84 l++t ++g+A+sw++++++ + ++ ++sW++lkk++r+tflp ++ +++ ++l++lrQg+++v++Y+e+f l++ d +e Chr1_6 5295114 LVATRFRGHAASWWQQFKTFRARTskapIRSWEKLKKKLRDTFLPHNYDRTMYNRLQNLRQGSRTVDDYAEEFYLLVTSNDIYDSEV 5295200 7899**************999999999*************************************************99988644445 PP Retrotrans_gag 85 akiekf 90 ++++ f Chr1_6 5295201 QLVSHF 5295206 555555 PP == domain 13 score: 42.9 bits; conditional E-value: 4.5e-14 Retrotrans_gag 1 klastsLegrAkswlkslvarsidases.WkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqlde.vvtee 84 +l+++sL ++A++w k+l ++si + W+d+kkaf+++f++++r+++l++e++ ++Q ++e++ e erfk++ +q+++ +++++ Chr1_6 5385297 RLFPFSLGDKAQHWEKTLPPDSI----N*WDDCKKAFLAKFFSNARTARLRNEISGFTQkNNETFYEACERFKSYTTQCPHhSFKKA 5385379 5899***************9987....899********************************************************* PP Retrotrans_gag 85 akiekflaG 93 ++++++++G Chr1_6 5385380 SLLSTLYRG 5385388 ********9 PP == domain 14 score: 41.9 bits; conditional E-value: 9.2e-14 Retrotrans_gag 1 klastsLegrAkswlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYy.erfktladqlde.vvtee 84 +l+++sL ++A++w ksl + si+ sW+ +kkaf+++f++++r+++l+++++ + Q ++e+++e + erfk + +q+++ +++++ Chr1_6 5494122 RLFPFSLGDKAHQWEKSLPQGSIT---SWNYCKKAFLAKFFSNSRTARLRNDISGFIQtNNETFCE-A*ERFKGYQTQCPHhGFSKA 5494204 5899********************...*******************************99999999.6669**************** PP Retrotrans_gag 85 akiekflaGL 94 ++++++++G+ Chr1_6 5494205 SLLSTLYRGV 5494214 ********96 PP == domain 15 score: 53.5 bits; conditional E-value: 2.2e-17 Retrotrans_gag 2 lastsLegrAks.wlkslvarsidasesWkdlkkafrktflpserkdqleeelrslrQgtesvreYyerfktladqlde.vvteeak 86 la+++L+g+A+ w + v+r++ +sW+d++ +f+++++p+e d++e+++ +l++g+ svreY ++fk+l+ ++ + +++++a+ Chr1_6 5637892 LAVHFLDGDAHL*WRSVTVRRRQA-DMSWTDFVAEFNAKYFPQEALDRMEARFLELTKGELSVREYGREFKRLLVYAGRgMEDDQAQ 5637977 799********9999999888888.59****************************************************999***** PP Retrotrans_gag 87 iekflaGLne 96 +++fl+GL++ Chr1_6 5637978 MRRFLRGLRP 5637987 ********85 PP == domain 16 score: 35.9 bits; conditional E-value: 6.6e-12 Retrotrans_gag 18 lvarsidasesWkdlkkafrktflpserkdqleeelrslrQ.gtesvreYyerfktladqldevvteeakiekflaGLn 95 l++ sid ++k+l++af k+++ + ++d +e++l++l+Q +e +r Y + fk+++ q++ + ++ a+++++ +GL+ Chr1_6 6007343 LEEGSID---NFKQLSTAFIKQYEYFIKSDVTEAQLWNLSQaADEPLRTYNTAFKEIMVQVP-GLSDSAAQSALKNGLW 6007417 5677788...9***************************************************.6*************97 PP >> Peptidase_C48 Ulp1 protease family, C-terminal catalytic domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 148.9 0.0 1.9e-46 4.8e-46 8 216 .] 4490881 4491086 .. 4490880 4491086 .. 0.94 2 ! 92.2 0.1 4e-29 1e-28 30 214 .. 5198411 5198593 .. 5198400 5198595 .. 0.93 3 ! 82.8 0.0 3e-26 7.6e-26 3 142 .. 5719154 5719296 .. 5719153 5719311 .. 0.93 4 ! 189.1 0.2 9e-59 2.3e-58 1 214 [. 5901242 5901453 .. 5901242 5901455 .. 0.98 5 ! 24.2 0.5 2.6e-08 6.7e-08 14 92 .. 9092234 9092299 .. 9092228 9092305 .. 0.78 6 ! 34.5 0.0 1.8e-11 4.5e-11 22 199 .. 9210491 9210658 .. 9210472 9210669 .. 0.83 Alignments for each domain: == domain 1 score: 148.9 bits; conditional E-value: 1.9e-46 HHHHHHH.......HHHTSTTEEE--THHHHHHH.....................H------TTCCHHCS..-GGG-SEEE--EET.T CS Peptidase_C48 8 idfylkllaerlesseekaervhflntffvskLtkkvkdfkknkskkkfkeskk.kdlyngvrrwtrkknkedlfdkdiiyiPinedg 94 +++++ ll+++l ++ +++r +f++++f ++L+ k+k+fk++k k+++k+s++ k+++ g+ n+e+++d+d+iy+P+ +d+ Chr1_6 4490881 MEVLVSLLSQKLA-TTLTNQRAAFVQPWFANHLQGKLKSFKAAKMKSRVKWSEPmKQFIVGP-------NTEWFADIDTIYLPMIWDS 4490960 6667777776666.99**********************************************.......788**************** PP TEEEB--EETTTTEE-EE-TT-----..H..HHHHHHHHHHHHHHHHTTS----.--......EEEEE-------------HHHHHHH CS Peptidase_C48 95 kHWvlliinlpkktililDSlislhk.vk..kenrpidnlkpyLleealnkksk.qldltpfeierltkvpqqknsgDCGiyvlkfie 178 kHWv+l+inl ++++ilD++ +l++ ++ + ++p+ +++pyL++++++++++ ++ l+pf ++rl++++++ + gDCG++++kf+e Chr1_6 4490961 KHWVGLAINLGVWSVEILDPNTDLYEeDEv*RFIEPVVTILPYLIQRYCKPECS*NHGLQPFYWKRLDGLYKNLRYGDCGPVTMKFLE 4491048 **************************43335579*****************9988889****************************** PP -------S---H....HHHHHHHHHHH...HHHHTTTT CS Peptidase_C48 179 llaegppqessvtltekdvdsfrkklaldiyeilrsrl 216 +la ++p e+++++t+k+vdsf +k+a+diye++ ++l Chr1_6 4491049 ILASDNPPENMAKITDKHVDSFSRKYAMDIYEEFVCPL 4491086 **********************************9975 PP == domain 2 score: 92.2 bits; conditional E-value: 4e-29 EE--THHHHHHH.....................H------TTCCHHCS..-GGG-SEEE--EET.TTEEEB--EETTTTEE-EE-TT- CS Peptidase_C48 30 hflntffvskLtkkvkdfkknkskkkfkeskk.kdlyngvrrwtrkknkedlfdkdiiyiPinedgkHWvlliinlpkktililDSli 116 +++ +++ ++L+ k+++f+++k+k +++++ + k+ + g + +l ++d i++P+ +++ HWv+l+inl ++ ++ilD++ Chr1_6 5198411 VIIKPWLDNYLQGKYRSFQSAKNKLRVQWNNQfKRTIPGS----PLV---WLEEIDLILMPMIWKNQHWVGLAINLGNWCVDILDPNY 5198491 67899999****************9999999855544444....777...************************************** PP ----....HHHHHHHHHHHHHHHHHTTS------.......EEEEE-------------HHHHHHH-------S---H....HHHHHH CS Peptidase_C48 117 slhk...vkkenrpidnlkpyLleealnkkskql.dltpfeierltkvpqqknsgDCGiyvlkfiellaegppqessvtltekdvdsf 200 +l+ v++ ++pi ++y++ ++++++ +q+ l pf+++r+++++ +++sgDCG +++k i+++a + + e+++ +t++ v +f Chr1_6 5198492 HLNDdrqVEEFIAPIVVQISYIINKFCQPRMSQVhGLAPFSWTRIKGIYVNERSGDCGRVSMKLIKIYATDGNVEKMALITDEIVNEF 5198579 ******************************99999*****************************************999********* PP HHHHH...HHHHTT CS Peptidase_C48 201 rkklaldiyeilrs 214 r ++a d +++l + Chr1_6 5198580 RGQYAIDLFQELVA 5198593 *****999888765 PP == domain 3 score: 82.8 bits; conditional E-value: 3e-26 --HHHHHHHHHH.........HHHTSTTEEE--THHHHHHH.....................H------TTCCHHCS..-GGG-SEEE CS Peptidase_C48 3 lndtvidfylkllaerles..seekaervhflntffvskLtkkvkdfkknkskkkfkeskk.kdlyngvrrwtrkknkedlfdkdiiy 87 l+ +v+d+++++ ++ l++ + ++ r+ +l+ +fvs+L +++++f+++ sk +f+++ + d+ +gv + + ++++d+iy Chr1_6 5719154 LCPQVMDALIRFSRHLLRTddVDGEKLRLKVLDLKFVSLLYRQFTKFSRCNSKTEFQFPLPlIDILSGVGESDSVQ---LFTEADYIY 5719238 7889***************9999****************************************************8...********* PP --EET.TTEEEB--EETTTTEE-EE-TT-----....HHHHHHHHHHHHHHHHHTTS- CS Peptidase_C48 88 iPinedgkHWvlliinlpkktililDSlislhk...vkkenrpidnlkpyLleealnk 142 +P+n+d+kHWv+l+++l++++i++lDS+i+++k + + +p++ ++ yL+++a + Chr1_6 5719239 LPFNFDKKHWVALAVDLKCRKIIVLDSNIQSRKdsaIHDVLMPLAVMLAYLFKQATFN 5719296 ************************************999**************96433 PP == domain 4 score: 189.1 bits; conditional E-value: 9e-59 ----HHHHHHHHHH.......HHHTSTTEEE--THHHHHHH.....................H------TTCCHHCS..-GGG-SEEE CS Peptidase_C48 1 ewlndtvidfylkllaerlesseekaervhflntffvskLtkkvkdfkknkskkkfkeskk.kdlyngvrrwtrkknkedlfdkdiiy 87 ++l+++++++++k+ +++ a+r+ +l+ +++++Ltk+v dfkk+ +k+ fk++k +d++ngv+ ++++ n+++++d+d+++ Chr1_6 5901242 QHLEMMAMLMWHKNG------EQMIANRCIVLDMMLTHLLTKRVGDFKKCINKNGFKWGKLlSDIANGVHINREP-NMKWMKDVDVVF 5901322 69999*********9......9*****************************************************.7*********** PP --EET.TTEEEB--EETTTTEE-EE-TT-----....HHHHHHHHHHHHHHHHHTTS------.......EEEEE------------- CS Peptidase_C48 88 iPinedgkHWvlliinlpkktililDSlislhk...vkkenrpidnlkpyLleealnkkskql.dltpfeierltkvpqqknsgDCGi 171 +P+n+++ HWv+l inl+++ i+++D lis+++ vk++++pi++++pyL++ ++++ ++ +++pfe++r+ +v+q++++g CG+ Chr1_6 5901323 APMNWKSEHWVALGINLNERLITVYDALISHTResaVKARMTPICEMMPYLVRAMCQDVLISPySVEPFEYVRCPTVAQNPTTGNCGP 5901410 ***********************************************************9999************************* PP HHHHHHH-------S---H....HHHHHHHHHHH...HHHHTT CS Peptidase_C48 172 yvlkfiellaegppqessvtltekdvdsfrkklaldiyeilrs 214 y+ kf+ella g+p+++ +t++e+d+ ++r+k+++diye+ ++ Chr1_6 5901411 YTRKFLELLAFGHPFSDLTTIREADMVFYRQKYSVDIYEHGKR 5901453 *****************999*******************9875 PP == domain 5 score: 24.2 bits; conditional E-value: 2.6e-08 H.......HHHTSTTEEE--THHHHHHH.....................H------TTCCHHCS..-GGG-SEEE--EET CS Peptidase_C48 14 llaerlesseekaervhflntffvskLtkkvkdfkknkskkkfkeskk.kdlyngvrrwtrkknkedlfdkdiiyiPine 92 +l++++ ++e+++r hf+n+ff+ kL d+ k++s ++ k+ + +vr+wtrk+ d+f kd+i++P+n Chr1_6 9092234 YLKNQI--QTEEKHRFHFFNSFFFRKLA----DLDKDPSS-----IADgKAAFLRVRKWTRKV---DMFGKDYIFVPVNY 9092299 443333..68999***************....55555544.....2235889***********...************97 PP == domain 6 score: 34.5 bits; conditional E-value: 1.8e-11 HHHTSTTEEE--THHHHHHH....................H------TTCCHHCS..-GGG-SEEE--EET.TTEEEB--EETTTTEE CS Peptidase_C48 22 seekaervhflntffvskLtkkvkdfkknkskkkfkeskkkdlyngvrrwtrkknkedlfdkdiiyiPinedgkHWvlliinlpkkti 109 ek + v f+++ fv L+k++++f k+ +k ++ g+ + + + ++yiP+ +d HWv+l+++ + i Chr1_6 9210491 IIEKHQAVSFIDSTFVVELSKHYPKFVKSADK----------GMYGFDHDLLEC---TPTGSAVVYIPFLIDLQHWVGLCVDMSARII 9210565 6789999********************99955..........444554444444...778899************************* PP -EE-TT-----....HHHHHHHHHHHHHHHHHTTS------.......EEEEE-------------HHHHHHH-------S---H... CS Peptidase_C48 110 lilDSlislhk...vkkenrpidnlkpyLleealnkkskql.dltpfeierltkvpqqknsgDCGiyvlkfiellaegppqessvtlt 193 +lD+ +l + kk p+++++pyL++ a++ ++ l++ + r +pq ++ +G+ + ie +a g q + + Chr1_6 9210566 SVLDCYTGLWRetkLKKVLLPLAEMLPYLFRFAIKMAGEKKlRLKSLAVHRENDIPQADSVKYSGVMAARLIEAHANGGIQACKE-VK 9210652 **********999999****************888776655599********************************999988643.66 PP .HHHHH CS Peptidase_C48 194 ekdvds 199 ++dv Chr1_6 9210653 HADVVT 9210658 666655 PP >> Plant_tran Plant transposon protein # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 22.7 0.0 6e-08 1.5e-07 30 207 .. 2577379 2577554 .. 2577355 2577558 .. 0.85 2 ! 136.6 0.2 8.3e-43 2.1e-42 66 188 .. 4413207 4413329 .. 4413207 4413331 .. 0.97 3 ! 48.0 0.0 1.1e-15 2.9e-15 95 144 .. 4609005 4609054 .. 4609001 4609072 .. 0.93 4 ! 80.0 0.0 1.8e-25 4.7e-25 1 82 [. 4788245 4788325 .. 4788245 4788329 .. 0.95 5 ! 84.2 0.0 9.2e-27 2.4e-26 1 106 [. 5454126 5454230 .. 5454126 5454230 .. 0.93 Alignments for each domain: == domain 1 score: 22.7 bits; conditional E-value: 6e-08 Plant_tran 30 fpgmlgsldcmhwkwkncptawkgqytrgdkksptiileavasydlwiwhaffglpgsnndinvldrsplfadilkGeaprvkyvvnekqy 120 f +g+ld h + p + + + rg+k +t+ + av+++ + a++g+pg d vl ++ + p ky + + y Chr1_6 2577379 FIDCIGALDGTHVSVRP-P-SGDVERYRGRKSEATMNILAVCNFSMKFNIAYVGVPGRAHDTKVLTYCATH-EASFPHPPAGKYYLVDSGY 2577466 44567888888887764.3.44445557*************************************998765.6677788889999999999 PP Plant_tran 121 nl.ayyladGiypkwatlvksirlpqlekkklfaqkqeaarkdverafGvlqarfkivakparlwekedlakimkaciilhnmivede 207 + + yl ++ + p ++ ++lf ++ + r +er+fGv +a+++i+++ +e ++ ki+++ + lhn i + + Chr1_6 2577467 PTrSGYLGPHRRTRYHLELFNRGGPPTNSRELFNRRHSSLRSVIERTFGVWKAKWRILDRKHPKYEVKKWIKIVTSTMALHNYIRDSQ 2577554 65378***99999999999899999999******************************************************997655 PP == domain 2 score: 136.6 bits; conditional E-value: 8.3e-43 Plant_tran 66 ileavasydlwiw.haffglpgsnndinvldrsplfadilkGeaprvkyvvnekqynlayyladGiypkwatlvksirlpqlekkklfaqk 155 ileav++ydlw ha+fglp +n dinvl+ s+lf++++ ap+v+y++++k+yn+ yyladGiypkw t+v+ i + ++kkk fa + Chr1_6 4413207 ILEAVSNYDLW-I*HAYFGLPDTNTDINVLESSHLFSNLALDIAPHVHYTIQGKEYNMRYYLADGIYPKWLTIVQNIYEFVTQKKKYFAVQ 4413296 79*******96.2669*************************************************************************** PP Plant_tran 156 qeaarkdverafGvlqarfkivakparlweked 188 q+a+rkdverafG+lq+rf+i++ p r w k+ Chr1_6 4413297 QKACRKDVERAFGILQSRFAIIKGPIRFWRKKC 4413329 *****************************9986 PP == domain 3 score: 48.0 bits; conditional E-value: 1.1e-15 Plant_tran 95 drsplfadilkGeaprvkyvvnekqynlayyladGiypkwatlvksirlp 144 d+sp+f+d+++G+ prv+++vn+++yn+ayyl dGiy ++t+vksirlp Chr1_6 4609005 DHSPVFDDVEQGNIPRVNFFVNKRPYNMAYYLVDGIYHFYPTFVKSIRLP 4609054 79**********************************************99 PP == domain 4 score: 80.0 bits; conditional E-value: 1.8e-25 Plant_tran 1 ivevfaarylraptaedverllkigesrgfpgmlgsldcmhwkwkncptaw.kgqytrgdkksptiileavasydlwiwhaff 82 i+ +f+++ylr+ taed++rll ges gfpgm+gs+d mhwkwkn + kgqytrg k ptiileavas+dlwiwhaf Chr1_6 4788245 IILLFGDEYLRKLTAEDIQRLLFTGESLGFPGMMGSIDYMHWKWKNS-STS*KGQYTRGFGK-PTIILEAVASQDLWIWHAFC 4788325 6789******************************************9.55688*******99.******************95 PP == domain 5 score: 84.2 bits; conditional E-value: 9.2e-27 Plant_tran 1 ivevfaarylraptaedverllkigesrgfpgmlgsldcmhwkwkncptaw.kgqytrgdkksptiil.eavasydlwiw.haffglpgsn 88 i+ +f+++ylr+p+a+d +rll + e++gf gm+gs dcmhw+wkncpt kgqytrg+ k pti + e vas+dlw haff p+++ Chr1_6 5454126 IMFLFEDEYLRKPSAQDRHRLLILREIQGFSGMMGSTDCMHWEWKNCPT-S*KGQYTRGSGK-PTI-V*EVVASQDLW-I*HAFFLPPSTL 5454212 6789*******************************************97.666*******99.775.8999*****96.2669999***** PP Plant_tran 89 ndinvldrsplfadilkG 106 n+invld+ p+f+dil+G Chr1_6 5454213 NNINVLDHNPVFDDILQG 5454230 ****************98 PP >> RVT_1 Reverse transcriptase (RNA-dependent DNA polymerase) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 25.8 0.0 6.8e-09 1.7e-08 120 210 .. 4598083 4598166 .. 4598035 4598170 .. 0.89 2 ! 37.3 0.0 2e-12 5.2e-12 1 213 [. 5037513 5037672 .. 5037513 5037673 .. 0.91 3 ! 52.0 0.0 6.6e-17 1.7e-16 6 214 .] 5174732 5174888 .. 5174710 5174888 .. 0.92 4 ! 42.4 0.0 5.8e-14 1.5e-13 2 212 .. 5407882 5408035 .. 5407880 5408037 .. 0.96 5 ! 35.7 0.0 6.4e-12 1.6e-11 66 194 .. 5505733 5505876 .. 5505730 5505879 .. 0.90 6 ! 35.5 0.1 7.3e-12 1.9e-11 2 78 .. 5671770 5671861 .. 5671769 5671862 .. 0.94 7 ! 81.2 0.1 7.9e-26 2e-25 1 214 [] 5747796 5747956 .. 5747796 5747956 .. 0.97 Alignments for each domain: == domain 1 score: 25.8 bits; conditional E-value: 6.8e-09 RVT_1 120 iyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflkelglelnpeKtkithksdevkfl 210 +y+++++p+G++++ + +++f+++++ + + ++ +Y+DD+l+ + ++++ l+e+ ++l++ ++lnpeK+++ ++ +fl Chr1_6 4598083 TYCYKVMPFGLKNAGATYQRFVSRMFADQLGK-----TMEVYIDDMLVKSAREKDHVPQLRECFKILNKFEMKLNPEKCSFG--VPSGEFL 4598166 589*************************9995.....9******************************************98..7777776 PP == domain 2 score: 37.3 bits; conditional E-value: 2e-12 RVT_1 1 ipkkgtgkyRp.isllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllk.kltafglp 93 ++kk+ gk R i d+ l+k++ s p ++++++ ++ + g+ l+++D +++++i ++p+ t+f+++ Chr1_6 5037513 VKKKN-GKDRVcI-----DFTDLNKACPE---------ESFPLPHIDRL--------VESTAGNELLSFMDAFSGYNQIMMNPE-D*EKTSFITD 5037583 57888.9999977.....99999999999.........88888888888........778999999999999999999999996.5556788999 PP RVT_1 94 qrfirlikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflke 188 ++iy+++++p+G++++ +++++++++++ + ++ +Y+DD+l+ + +ke++ ++lee+ +l++ Chr1_6 5037584 ------------------------RGIYCYKVMPFGLKNAGPTYQRLVNKMFNEHLGK-----TMEVYIDDMLVKSLKKEDHVKHLEECFVILNQ 5037649 ........................79*****************************995.....9******************************* PP RVT_1 189 lglelnpeKtkithksdevkflGyv 213 + ++lnp K+++ ++ +flGy Chr1_6 5037650 YQMKLNPAKCTFG--VPSKEFLGYI 5037672 *************..********96 PP == domain 3 score: 52.0 bits; conditional E-value: 6.6e-17 RVT_1 6 tgkyRp.isllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqrfirl 99 +++ R+ i d+++l+++++k ++ p + ++++ l++l ++ ++ +lD ++F++ip++p ++ t f++p Chr1_6 5174732 ITGHRMcI-----DYRKLNAASRK---------DHFPLPFIDQM--------LERLANHPYYCFLDGYSGFFQIPIHPNDQEKTTFTCP------ 5174798 78899977.....***********.........***********........899**********************************...... PP RVT_1 100 ikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflkelgleln 194 +++ ++ +p+G+ ++P+ f++++ ++++l + ++ +++DD+ ++ +s + + l ++ + ++e +l ln Chr1_6 5174799 ------------------YGTFAYKHMPFGLCNAPATFQRCMTSIFSDLIEE-----MVEVFMDDFFVYGSSFSSCLLNLCRVLKRCEETNLVLN 5174870 ..................789*****************************96.....7************************************* PP RVT_1 195 peKtkithksdevkflGyvi 214 eK++++ +e +lG++i Chr1_6 5174871 WEKCQFM--VREGIVLGHKI 5174888 *******..99999999976 PP == domain 4 score: 42.4 bits; conditional E-value: 5.8e-14 RVT_1 2 pkkgtgkyRp.isllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqr 95 ++k+ gk+R i d+ l+k++ k +s p ++++++ ++ + g+ l+++D +++++i ++p ++ taf+++ Chr1_6 5407882 KNKN-GKWRVcI-----DFMDLNKACPK---------DSFPLPHIDRL--------VKATAGHELLSFMDAFSGYNQILMRPDDQEKTAFITD-- 5407951 5677.*****88.....***********.........***********........889**********************************.. PP RVT_1 96 firlikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflkelg 190 +++++p+G+++ + +++++++++ + + ++ +Y+DD+l+ + ++++ l+e+ ++l++ Chr1_6 5407952 --------------------------CYKVMPFGLKNTGATYQRLVNRMFADQLGK-----TMELYIDDMLVKSAHEKDHLPQLRECFKILNKFE 5408015 ..........................79*************************995.....9********************************* PP RVT_1 191 lelnpeKtkithksdevkflGy 212 ++lnpeK+++ ++ +flGy Chr1_6 5408016 MKLNPEKCSFG--VPSGEFLGY 5408035 ***********..********9 PP == domain 5 score: 35.7 bits; conditional E-value: 6.4e-12 RVT_1 66 llklDlkkaFdsiph.dpllkkltafglpqrfirlikkllstrsravylegekgeiyesrg.lpqGsvlSPllfnlflheldkflrkaf...... 152 ++k+D++ka+++i d+l +l ++g+++++i++i+ ++s++s++v l+g+ ++ e + l+qG +lSP++f l+++ l ++ ka Chr1_6 5505733 AIKTDMSKAYNRI-E*DFLTAVLARLGFNSTWISWIMWCVSSVSYQVLLNGQPRGLIELQR*LRQGHPLSPYMFILCTEVLIANIMKAEqekkft 5505826 5778888888877.234789999****************************9667777777**************************99****** PP RVT_1 153 .....kpr..llyvrYaDDiligaks.keeleeileeieeflkelgleln 194 k++ + ++++aDD l+++k e++ +++++ ++ k lg+e+n Chr1_6 5505827 gikiaKRSp*ISHLLFADDSLFFCKVeTEQCPTVVDITGNYGKTLGQEIN 5505876 ***965557889**************7788*******************9 PP == domain 6 score: 35.5 bits; conditional E-value: 7.3e-12 RVT_1 2 pkkg....tgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslht...........ikalnklsgskwllklDlkkaFdsi 78 pk + +++ Rpisl+sv +ki++k+l+ rL+++l+ ++s+ + +f r + + +++++k+s++ ++ k+D++ka+d++ Chr1_6 5671770 PKITnparMTDIRPISLCSVLYKIVSKILSPRLKKHLPAIVSPTQSAFVVERLVSDniilaheivhnLRTNEKISKEFMVFKTDMSKAYDRV 5671861 666666789*********************************************99**********98888999****************99 PP == domain 7 score: 81.2 bits; conditional E-value: 7.9e-26 RVT_1 1 ipkkgtgkyRpisllsvddkilqkllakrLeeileplfsepshgfrpgrslhtikalnklsgskwllklDlkkaFdsiphdpllkkltafglpqr 95 +pkk+ g++R+ vd+++++ +++k +p + ++++ l++l+gs +++k+Dlk+++++i++++ +++ taf++ Chr1_6 5747796 VPKKD-GSWRMC----VDCRAINNITVK---------YRHPIPRLDDM--------LDELHGSSIFSKVDLKSGYHQIRMKEGDEWKTAFKTI-- 5747866 79***.*****5....5***********.........99999999999........999******************************9999.. PP RVT_1 96 firlikkllstrsravylegekgeiyesrglpqGsvlSPllfnlflheldkflrkafkprllyvrYaDDiligakskeeleeileeieeflkelg 190 ++ ye+ ++p+G+ ++P f+++++++++ + + ++++Y DDil+++ks ee+ e+l+ + e+l++++ Chr1_6 5747867 ----------------------QGLYEWLVMPFGLTNAPSTFMRLMNHVLRAFIGR-----FVIVYFDDILVYSKSLEEHVEHLKMVLEVLRKEK 5747934 ......................889******************************8.....5********************************* PP RVT_1 191 lelnpeKtkithksdevkflGyvi 214 l n +K+++ +d++ flG+v+ Chr1_6 5747935 LYANLKKCTFG--TDNLVFLGFVV 5747956 ***********..********985 PP >> Transposase_23 TNP1/EN/SPM transposase # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 58.6 0.0 3.6e-19 9.2e-19 3 72 .. 5528276 5528345 .. 5528275 5528346 .. 0.94 2 ! 76.5 0.0 9.6e-25 2.4e-24 2 72 .. 6084646 6084716 .. 6084645 6084717 .. 0.96 3 ! 79.4 0.0 1.2e-25 3e-25 2 72 .. 6374688 6374758 .. 6374687 6374759 .. 0.97 4 ! 81.2 1.9 3.2e-26 8.2e-26 1 73 [] 6374878 6374950 .. 6374878 6374950 .. 0.98 Alignments for each domain: == domain 1 score: 58.6 bits; conditional E-value: 3.6e-19 Transposase_23 3 sqkkckllDwkssddvVaegrv.cssdpdelvnriPLGpnaakVlVdvvlvkdAalWRptseietledalg 72 s++kckllD++s+d vVaegr+ +d+++lvn +PLGp a+kV+ dv+l++++++WRpt+e+++led+l+ Chr1_6 5528276 SGNKCKLLDLSSNDVVVAEGRW*T-KDQNTLVNGLPLGPAAMKVFMDVILQPETFIWRPTMEVTYLEDCLQ 5528345 578******************777.78999***************************************97 PP == domain 2 score: 76.5 bits; conditional E-value: 9.6e-25 Transposase_23 2 ksqkkckllDwkssddvVaegrvcssdpdelvnriPLGpnaakVlVdvvlvkdAalWRptseietledalg 72 +s +k++++Dw+++ +vV+egr+cs+d+ elvn++PLGp+a V+V+++++kdA+lWR+++e ++++d+l+ Chr1_6 6084646 SSAVKIIIIDWNMACSVVGEGRLCSTDRLELVNNMPLGPSAGIVKVEKLFNKDAYLWRASPEKFVMGDVLN 6084716 5678*****************************************************************97 PP == domain 3 score: 79.4 bits; conditional E-value: 1.2e-25 Transposase_23 2 ksqkkckllDwkssddvVaegrvcssdpdelvnriPLGpnaakVlVdvvlvkdAalWRptseietledalg 72 +sq+kckllD+++++ +Vaegr++++++++lvn +PLGp+a++V+Vd+vl++++++WRpt+e+++led+l+ Chr1_6 6374688 NSQNKCKLLDLSTDEVIVAEGRWQTQEKNALVNGLPLGPSAVNVFVDKVLMRETFVWRPTMEMMYLEDCLM 6374758 5799*****************************************************************97 PP == domain 4 score: 81.2 bits; conditional E-value: 3.2e-26 Transposase_23 1 sksqkkckllDwkssddvVaegrvcssdpdelvnriPLGpnaakVlVdvvlvkdAalWRptseietledalgs 73 sk++ kckl+D++++++v ae r++++dp+++v+++PL++na+kV+Vd+v+v+d ++WRp++e+e++edalg+ Chr1_6 6374878 SKKNMKCKLMDITGKKRVMAERRWATNDPKQKVHFVPLDDNAVKVWVDIVKVSDVTVWRPSDEVEIMEDALGT 6374950 58899******************************************************************96 PP >> hATC hAT family dimerisation domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 72.6 0.0 1.7e-23 4.4e-23 2 84 .] 2811910 2811993 .. 2811909 2811993 .. 0.97 2 ! 77.5 0.2 5.1e-25 1.3e-24 2 84 .] 4773423 4773509 .. 4773422 4773509 .. 0.97 3 ! 52.6 0.1 3e-17 7.8e-17 1 83 [. 5726427 5726512 .. 5726427 5726513 .. 0.94 4 ! 36.1 0.0 4.3e-12 1.1e-11 10 68 .. 5854511 5854577 .. 5854504 5854593 .. 0.82 5 ! 82.8 0.3 1.1e-26 2.9e-26 1 84 [] 8387193 8387275 .. 8387193 8387275 .. 0.99 Alignments for each domain: == domain 1 score: 72.6 bits; conditional E-value: 1.7e-23 hATC 2 ldeyleelpvlrrne..efdvlewwkqnssryPnlsklardvLsipvssaasErsFstlgkvllesrnsleplnveallcieqwl 84 l++yl++ p l+ + +++vl++wk +++ry l la+ +Lsip++++a+E+sFs++g++l+++rn+l + nv+allc+++wl Chr1_6 2811910 LQNYLDD-PRLDLRSftDMEVLSYWKGDGQRYGDLASLASAILSIPITTVAAESSFSIGGRILNPFRNRLLSRNVQALLCTRNWL 2811993 889****.**9999999*******************************************************************7 PP == domain 2 score: 77.5 bits; conditional E-value: 5.1e-25 hATC 2 ldeyleelpvlrrne.....efdvlewwkqnssryPnlsklardvLsipvssaasErsFstlgkvllesrnsleplnveallcieqwl 84 ld yl+e + +++++ e dv++ww++ns+++P+ls +a+dv++++vss+asE++Fst+g++l +sr++l +++ e l+c++qw+ Chr1_6 4773423 LDMYLKE-KAENPKSnmfgnENDVMDWWRRNSGKFPVLSEIAKDVFAMQVSSVASESAFSTSGRLLEPSRSCLSHYTIEVLMCTDQWM 4773509 899****.88888888***********************************************************************8 PP == domain 3 score: 52.6 bits; conditional E-value: 3e-17 hATC 1 eldeyleelpvlrrne...efdvlewwkqnssryPnlsklardvLsipvssaasErsFstlgk.vllesrnsleplnveallcieqw 83 el++yl+ + +++ +f +++wwk ++s yP+l +a+dvLs pvs+++ Er+Fs + +l+e r+++ p+++ea c+++w Chr1_6 5726427 ELEKYLSTNFEFSDADagnNFQIIHWWKSHQSQYPILAMIAKDVLSSPVSTFSVERAFSMG-G*ILDETRSRMSPDSLEAQACLDDW 5726512 89******888887779*******************************************8.5559********************9 PP == domain 4 score: 36.1 bits; conditional E-value: 4.3e-12 hATC 10 pvlrrne......efdvlewwkqnssryPnlsklardvLsipvssaasErsFstl..gkvllesrns 68 +vlr +++vl+++k+ +++yPn+++ + ++L+ipvs ++ ErsFs+l +k +l+s++s Chr1_6 5854511 KVLREVLpnevkkPIEVLDFLKRMGGCYPNTWISYGILLTIPVSVVSVERSFSKLklIKNYLRSKMS 5854577 55554335556779*****************************************888888888886 PP == domain 5 score: 82.8 bits; conditional E-value: 1.1e-26 hATC 1 eldeyleelpvlrrneefdvlewwkqnssryPnlsklardvLsipvssaasErsFstlgkvllesrnsleplnveallcieqwl 84 eld+ylee ++++r+e+f+vl+ww++n+++yP+lsk+a d+Ls+p s++++ ++F t +k ++++r+sl +++eallc+++wl Chr1_6 8387193 ELDQYLEE-NLIPRSEDFNVLSWWRVNNTNYPTLSKMAVDLLSVPFSTVSPDSVFDTEVKQMDNYRTSLPGETLEALLCTKDWL 8387275 89******.**************************************************************************7 PP >> Transposase_24 Plant transposase (Ptta/En/Spm family) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 76.3 0.0 2.5e-24 6.4e-24 51 139 .. 3859935 3860056 .. 3859933 3860057 .. 0.97 2 ! 53.4 0.0 2.8e-17 7.2e-17 55 121 .. 4824992 4825061 .. 4824985 4825063 .. 0.94 3 ! 39.9 0.0 4.1e-13 1.1e-12 52 121 .. 4888122 4888194 .. 4888120 4888197 .. 0.94 4 ! 46.8 0.2 3.1e-15 7.9e-15 53 121 .. 5484238 5484316 .. 5484237 5484316 .. 0.96 5 ! 45.5 0.0 8.3e-15 2.1e-14 2 50 .. 5563747 5563799 .. 5563746 5563803 .. 0.96 6 ! 36.5 0.1 4.8e-12 1.2e-11 1 49 [. 5617449 5617501 .. 5617449 5617504 .. 0.96 Alignments for each domain: == domain 1 score: 76.3 bits; conditional E-value: 2.5e-24 Transposase_24 51 eeekgktpdraevfieTHtkkDGtyvdekaeeiaekvkerlqereseseseasaesdgssr......edkneif............. 118 ee++g+++ +evfi+THtk+DGtyvd+kae+ia ++++++e++se+e+ asa+sdgssr +++ if Chr1_6 3859935 EEKMGRPVPLGEVFIQTHTKSDGTYVDQKAEKIALAYEQNVREKLSELEAAASAVSDGSSRprdltlDEYAAIFlevrcslsfses* 3860021 6677***************************************************************999***************** PP Transposase_24 119 ..............lqvvgkdkkgrvyglGslqee 139 lq+++kd +g++yglG+l+e+ Chr1_6 3860022 rhlgsvtnylplyfLQSTEKDARGNPYGLGCLKET 3860056 ********************************997 PP == domain 2 score: 53.4 bits; conditional E-value: 2.8e-17 Transposase_24 55 gktpdraevfieTHtkkDGtyvdekaeeiaekvkerlqereseseseasaesdgssr...edkneiflqv 121 ++tpd++ ++++TH+k+DG+++d+k+eei+++v++++qe+es ++s++ +es+gs++ ++kn+i+ qv Chr1_6 4824992 ESTPDFLLLLDKTHRKPDGSFIDRKSEEIYKEVSSKIQEEESLLCSGDTTESTGSGGlsiQAKNKIYAQV 4825061 79*****************************************************************997 PP == domain 3 score: 39.9 bits; conditional E-value: 4.1e-13 Transposase_24 52 eekgktpdraevfieTHtkkDGtyvdekaeeiaekvkerlqereseseseasaesdgssr...edkneiflqv 121 e+ +tpd++ v++ TH+k+DGt++dek+ ei+++v++r+ e e+ ++ +++ es++s++ kn+i+ qv Chr1_6 4888122 ETDDSTPDFLVVLEMTHRKPDGTFIDEKSVEIYKEVSSRIDEAETLLQLGDNIESSASGGllvAVKNKIYAQV 4888194 44589******************************************************9**********998 PP == domain 4 score: 46.8 bits; conditional E-value: 3.1e-15 Transposase_24 53 ek.gktpdraevfieTHtkkDGtyvdekaeeiaekvkerlqereseseseasaesdgssr.........edkneiflqv 121 e+ g++++ +evf++THt++DG++vd kae++ae +k+ ++e+++e++++ +++s +ss+ +dkneiflqv Chr1_6 5484238 ELyGRHVSLGEVFMKTHTRADGSFVDAKAEKVAEVYKKACEEKLTEIDDDGPKTSMNSSElsthrdlniDDKNEIFLQV 5484316 5569***************************************************99999****************997 PP == domain 5 score: 45.5 bits; conditional E-value: 8.3e-15 Transposase_24 2 pevwktLvayWdtekakkrseknkkar....nglgihkHtsgsksfaqirkel 50 +++w t++ yWdte+a+krs++++kar nglg+h H sg+ksf++i++el Chr1_6 5563747 ETLWGTMCDYWDTEEAQKRSKTYSKARlsdrNGLGPHVHYSGPKSFQEIQDEL 5563799 799************************************************98 PP == domain 6 score: 36.5 bits; conditional E-value: 4.8e-12 Transposase_24 1 dpevwktLvayWdtekakkrseknkkar....nglgihkHtsgsksfaqirke 49 dp vw++L+ +W+++k++ +s+++++ar +glgihkH+sg++s+++++++ Chr1_6 5617449 DPAVWAGLISFWRDPKSELKSINSRNARlhdpDGLGIHKHRSGQTSYKAHARK 5617501 689***********************************************985 PP >> MULE MULE transposase domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 61.3 0.0 8.4e-20 2.1e-19 1 92 [. 4272787 4272877 .. 4272787 4272878 .. 0.96 2 ! 31.7 0.0 1.5e-10 3.8e-10 2 79 .. 4819261 4819337 .. 4819260 4819338 .. 0.93 3 ! 27.0 0.0 4.4e-09 1.1e-08 2 66 .. 6095347 6095412 .. 6095346 6095415 .. 0.88 Alignments for each domain: == domain 1 score: 61.3 bits; conditional E-value: 8.4e-20 MULE 1 gtyktgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevfpdarhrlClwHilrnl 92 gt+ +gkyk l++a+ g d++ ++fplaf++v++E+ w+wf+e+l + + + +v+++D+++++++ +++v+p ++h C +H++rn+ Chr1_6 4272787 GTHTKGKYKSCLVTAS---GQDGNYQIFPLAFGIVDNENIAVWQWFFEQLSQFVPDeeDLVFVSDRHATIYAGLRTVYPLVKHACCTVHLFRNV 4272877 69999****99**977...***********************************956899*********************************8 PP == domain 2 score: 31.7 bits; conditional E-value: 1.5e-10 MULE 2 tyktgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkalng..pvvvitDgdkglakaikevfpda 79 t+ gky gall+a d++ +++p+afa+v++ ++++w+wf+++l +++ + +i+++++++ k ik+ +p++ Chr1_6 4819261 TFLQGKYLGALLTAT---VQDGNFQLYPIAFAVVDTNNNQYWKWFFKQLSCLIQDdeSLAIISNRHQSIGKTIKTFYPKS 4819337 788999*99***966...********************************999956899******************986 PP == domain 3 score: 27.0 bits; conditional E-value: 4.4e-09 MULE 2 tyktgkykgallsakvlvgvdaddegfplafalvesEsaeswtwfletlkkaln...g.pvvvitDgdk 66 t+ + kg ll+ +++ da+++++p+a+a v+ E+ae+w wfl++lk++l+ g vvi+D++k Chr1_6 6095347 TFLKHAVKGCLLT---AIAHDANNQIYPVAWATVQFENAENWLWFLNQLKHDLElkdGsGYVVISDRCK 6095412 6676677777788...5699*********************************99754889*******8 PP >> MuDR MuDR family transposase # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 39.8 0.1 2.9e-13 7.4e-13 3 67 .] 4808293 4808357 .. 4808291 4808357 .. 0.97 2 ! 26.3 1.3 4.5e-09 1.2e-08 16 67 .] 5517511 5517562 .. 5517510 5517562 .. 0.96 3 ! 40.5 0.2 1.7e-13 4.2e-13 3 67 .] 5646196 5646262 .. 5646194 5646262 .. 0.97 4 ! 46.8 1.5 1.9e-15 4.9e-15 2 65 .. 6095144 6095208 .. 6095143 6095209 .. 0.95 5 ! 44.9 0.8 7.3e-15 1.9e-14 2 64 .. 6912753 6912815 .. 6912752 6912817 .. 0.96 Alignments for each domain: == domain 1 score: 39.8 bits; conditional E-value: 2.9e-13 MuDR 3 elevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCkkegCpWrvraskdkdsktfki 67 l+vGq+F++k+++ +k+ ++ ++f+f+v ks+++ y++ C+ +gC Wrvra+ + + +f++ Chr1_6 4808293 GLAVGQCFETKDHLETRLKILTVLQKFDFDVSKSTPKLYFVMCWIKGCWWRVRATLVDEYPKFQV 4808357 689************************************************************98 PP == domain 2 score: 26.3 bits; conditional E-value: 4.5e-09 MuDR 16 fkeavkkyaiknrfefkvkksdktryrakCkkegCpWrvraskdkdsktfki 67 ++e+v+++a++n f + +kksdk+ y++kC+k+ C W +ras +++ f+i Chr1_6 5517511 LHEVVDRVAFVNSFGYVIKKSDKEHYVFKCAKKSCSWCLRASNIRNTYIFSI 5517562 7899*****************************************9999987 PP == domain 3 score: 40.5 bits; conditional E-value: 1.7e-13 MuDR 3 elevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCk..kegCpWrvraskdkdsktfki 67 +e+Gq+F s+e+++e v++ a k+ f + ++ksd+ r++++C+ ++gC+W++r++++k+s+ +++ Chr1_6 5646196 GIEIGQEFCSREAVWELVNRAAKKEVFGVYTIKSDPLRLMLRCRqaSKGCTWYLRVARTKKSHFWSV 5646262 689******************************************99******************97 PP == domain 4 score: 46.8 bits; conditional E-value: 1.9e-15 MuDR 2 pelevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCk.kegCpWrvraskdkdsktf 65 + l++G++F++ efke+v +ya+k+r + k+ +++k+++ ++C+ +++C+W+v+as++++ + + Chr1_6 6095144 DRLAIGRTFFTGFEFKEVVLHYAMKHRINAKQNRWEKDKISFRCAqRKECEWYVYASYSHERQLW 6095208 6899*****************************************8899**********999988 PP == domain 5 score: 44.9 bits; conditional E-value: 7.3e-15 MuDR 2 pelevGqvFkskeefkeavkkyaiknrfefkvkksdktryrakCkkegCpWrvraskdkdskt 64 ++l vG+vFk+++ ++++++ aik++f fk++ks++++++++C++e+CpW++ a+++kds+ Chr1_6 6912753 ETLFVGSVFKNRKVLQQTMSLQAIKQCFCFKQPKSCPKTLKMVCVDETCPWQLTARVVKDSEI 6912815 5799********************************************************975 PP >> RVP_2 Retroviral aspartyl protease # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 63.6 0.0 2e-20 5.1e-20 23 134 .. 5492627 5492739 .. 5492626 5492740 .. 0.93 Alignments for each domain: == domain 1 score: 63.6 bits; conditional E-value: 2e-20 RVP_2 23 lGtflvnsiPatvLfDsGashsfiskafvkkhglkveelktpllvssPggdik.atkrspsvsieiqgvdfladlilleskdlDviLGldWlakh 116 +Gt+++ i ++vLfDsGa+hsf+s +++k ++++e p +v++ gg++ + + ++i+g+++++dli++ ++ +viLG+dWl k+ Chr1_6 5492627 IGTLQIGGIETMVLFDSGATHSFVSPRMIGKGKFQKEPRMDPTVVNAAGGQAMiPEGQVCGIPVSIKGIEMPVDLIIIPLEKHEVILGMDWLGKY 5492721 79********************************************999875515567778********************************** PP RVP_2 117 kgvidCaertvtLtsekg 134 k++++C +++v +++e g Chr1_6 5492722 KATLNCHRGKVRFEREGG 5492739 ***********9998877 PP >> Transposase_11 Transposase DDE domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 70.4 0.0 1.5e-22 3.9e-22 6 207 .] 2577383 2577546 .. 2577380 2577546 .. 0.94 Alignments for each domain: == domain 1 score: 70.4 bits; conditional E-value: 1.5e-22 EEEEETTT--EEEEE--....HSSHH---HHHHHHHHHHH---GGGEEEEEEGGG-HHHHHHHHHHTT-EEE....--BHHHHHH.T CS Transposase_11 6 vlivDaTlvreapakkr....ykggkyrygyklhivvdlrgglllsvqvtpgnvhDektlleqlldtlpine....vlvlaDaGY.a 83 + ++D+T+v + + y+g+k+ +++++ +v++++++++++++ pg++hD+k+l+++ ++++ +++ +++l+D+GY + Chr1_6 2577383 IGALDGTHV-SVRPPSGdverYRGRKSEATMNILAVCNFSMKFNIAYVGVPGRAHDTKVLTYCATHEASFPHppagKYYLVDSGYpT 2577468 7899*****.677666689999************************99999************************************ PP S-......-----EEEE--E-EE-----EEEE--EEEEEEEE---EEESS--------E.EEEESS--SSHHHHHHHHHHHHTTHHH CS Transposase_11 84 seellealeekgikyiirlkgnankkqkkeerlfekdglnkksseyerlrrvvlvkskkdgyyvyntnltelsaeevkelyrlRwqi 170 + ++l ++++ ++++ + +g ++ ++ ++ +++++lR++i Chr1_6 2577469 RSGYLGPHRRTRYHLELFNRGGPPTNSRELFN---------------------------------------------RRHSSLRSVI 2577510 **************************999988.............................................8********* PP HHHHHHH..H-----TTS--SSHHHHHHHHHHHHHHHHH CS Transposase_11 171 ErvFktl..krglglrrlrgrtrnrleaflliallalnl 207 Er+F+++ k++ +r++++++ +++++ i++ +++l Chr1_6 2577511 ERTFGVWkaKWRILDRKHPKYE---VKKWIKIVTSTMAL 2577546 *******999999999999999...*****999999876 PP >> RnaseH RNase H [No individual domains that satisfy reporting thresholds (although complete target did)] >> DUF659 Protein of unknown function (DUF 659) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 45.9 0.6 4.4e-15 1.1e-14 46 109 .. 5645212 5645275 .. 5645210 5645277 .. 0.96 Alignments for each domain: == domain 1 score: 45.9 bits; conditional E-value: 4.4e-15 DUF659 46 grslinllvscekgvvFlksvdasdevkdaeyllelldevveevGeenvVqvitdnasnykaag 109 ++++n+lv+++kg +F+ks+d+s ++kda++l++ ld +v+evGe nvV+v+ dnasny++a+ Chr1_6 5645212 TKDIVNFLVNSPKGSIFIKSIDISTVLKDANMLYDHLDLMVDEVGEANVVKVVIDNASNYVKAS 5645275 689**********************************************************986 PP >> Transposase_mut Transposase, Mutator family [No individual domains that satisfy reporting thresholds (although complete target did)] Internal pipeline statistics summary: ------------------------------------- Query sequence(s): 1 (10142557 residues) Target model(s): 46 (7833 nodes) Passed MSV filter: 46 (1); expected 46.0 (1) Passed bias filter: 46 (1); expected 46.0 (1) Passed Vit filter: 46 (1); expected 46.0 (1) Passed Fwd filter: 46 (1); expected 46.0 (1) Initial search space (Z): 46 [actual number of targets] Domain search space (domZ): 18 [number of targets reported over threshold] # CPU time: 2053.12u 2.12s 00:34:15.23 Elapsed: 00:34:17.14 # Mc/sec: 38.62 //