[Bioperl-l] blastxml oddity

[Chris Fields]

Just noticed an oddity from BLASTXML output from the NCBI server; I'm  
cc'ing this to NCBI so maybe they can explain.  BTW, the following  
doesn't occur via URLAPI.

When running a standard BLAST query using the NCBI web page, if  
requesting XML output after the run I get the entire query seq masked  
out and no midline.  This occurs with all default settings except  
output type (set to XML).  Can anyone replicate this?

Here's a sample:

<Hit_hsps>
             <Hsp>
               <Hsp_num>1</Hsp_num>
               <Hsp_bit-score>320.472</Hsp_bit-score>
               <Hsp_score>820</Hsp_score>
               <Hsp_evalue>2.17708e-86</Hsp_evalue>
               <Hsp_query-from>1</Hsp_query-from>
               <Hsp_query-to>181</Hsp_query-to>
               <Hsp_hit-from>1</Hsp_hit-from>
               <Hsp_hit-to>181</Hsp_hit-to>
               <Hsp_query-frame>0</Hsp_query-frame>
               <Hsp_hit-frame>0</Hsp_hit-frame>
               <Hsp_identity>0</Hsp_identity>
               <Hsp_positive>0</Hsp_positive>
               <Hsp_gaps>0</Hsp_gaps>
               <Hsp_align-len>181</Hsp_align-len>
                
<Hsp_qseq>XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX</Hsp_qseq>
                
<Hsp_hseq>MNQKAVILDEQAIRRALTRIAHEMIERNKGMNNCILVGIKTRGIYLAKRLAERIEQIEGNPV 
TVGEIDITLYRDDLSKKTSNDEPLVKGADIPVDITDQKVILVDDVLYTGRTVRAGMDALVDVGRPSSIQLAV 
LVDRGHRELPIRADYIGKNIPTSKSEKVMVQLDEVDQNDLVAIYENE</Hsp_hseq>
                
<Hsp_midline>                                                            
                                                                         
                                                    </Hsp_midline>
             </Hsp>
           </Hit_hsps>



<notblast>chris</notblast>