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Package Bio :: Package Compass :: Class _Scanner |
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Method Summary | |
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QUERY 2 LSDRLELVSASEIRKLFDIAAGMKDVISLGIGEPDFDTPQHIKEYAKEALDKGLTHYGPN... | |
length1=388 filtered_length1=386 length2=145 filtered_length2=137 | |
Ali1: 60456.blo.gz.aln Ali2: allscop//14984.blo.gz.aln | |
Nseqs1=399 Neff1=12.972 Nseqs2=1 Neff2=6.099 | |
_scan_record(self,
handle,
consumer)
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Smith-Waterman score = 37 Evalue = 5.75e+02 | |
Threshold of effective gap content in columns: 0.5 | |
Feed in COMPASS ouput |
Method Details |
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_scan_alignment(self, handle, consumer)QUERY 2 LSDRLELVSASEIRKLFDIAAGMKDVISLGIGEPDFDTPQHIKEYAKEALDKGLTHYGPN ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ QUERY 2 LSDRLELVSASEIRKLFDIAAGMKDVISLGIGEPDFDTPQHIKEYAKEALDKGLTHYGPN QUERY IGLLELREAIAEKLKKQNGIEADPKTEIMVLLGANQAFLMGLSAFLKDGEEVLIPTPAFV ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ QUERY IGLLELREAIAEKLKKQNGIEADPKTEIMVLLGANQAFLMGLSAFLKDGEEVLIPTPAFV |
_scan_lengths(self, handle, consumer)length1=388 filtered_length1=386 length2=145 filtered_length2=137 |
_scan_names(self, handle, consumer)Ali1: 60456.blo.gz.aln Ali2: allscop//14984.blo.gz.aln |
_scan_profilewidth(self, handle, consumer)Nseqs1=399 Neff1=12.972 Nseqs2=1 Neff2=6.099 |
_scan_scores(self, handle, consumer)Smith-Waterman score = 37 Evalue = 5.75e+02 |
_scan_threshold(self, handle, consumer)Threshold of effective gap content in columns: 0.5 |
feed(self, handle, consumer)Feed in COMPASS ouput |
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