[Biopython-dev] Re: cleaning features

Jeffrey Chang jchang at SMI.Stanford.EDU
Mon Oct 15 14:05:52 EDT 2001

>Also, parsing of TBLASTX records stalls due to the unusual format of 
>the final information:
>Matrix: BLOSUM62
>Number of Hits to DB: 10,447,982,379
>Number of Sequences: 988209
>Number of extensions: 209322370
>Number of successful extensions: 17383937
>Number of sequences better than 1.0e-50: 110
>length of database: 1,426,479,391
>effective HSP length: 60
>effective length of database: 1,367,186,851
>effective search space used: 869530837236
>frameshift window, decay const: 50,  0.5
>T: 13
>A: 40
>X1: 16 ( 7.3 bits)
>X2: 0 ( 0.0 bits)
>S1: 41 (21.7 bits)

Thanks for pointing this out.  The Standalone parser gets used more 
often, so fixes make it into there more often than the web one.  I'll 
update the WWW parser, and it should fix this problem.


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