[Bio] / FigKernelScripts / find_SEED_SSU_rRNA_genes.pl Repository:
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revision 1.3, Mon May 4 18:19:57 2009 UTC revision 1.4, Mon May 4 20:54:03 2009 UTC
# Line 23  Line 23 
23    
24  Output:  Output:
25    
26      genome_id \t location \t sequence \t tag \t proposed_assignment      genome_id \t type \t location \t sequence \t tag \t proposed_assignment
27    
28        where type is always rna.
29    
30  Options:  Options:
31    
# Line 100  Line 102 
102                             my $seq = $_->{ sequence };                             my $seq = $_->{ sequence };
103                             my ( $c, $b, $e ) = $loc =~ /^(.*)_(\d+)_(\d+)$/;                             my ( $c, $b, $e ) = $loc =~ /^(.*)_(\d+)_(\d+)$/;
104                             $seq =~ s/$pat/$1...$2/ if $condense;                             $seq =~ s/$pat/$1...$2/ if $condense;
105                             [ $c, $b+$e, [ $genome, $loc, lc $seq ] ]                             [ $c, $b+$e, [ $genome, 'rna', $loc, lc $seq ] ]
106                           }                           }
107                      @$instances;                      @$instances;
108    

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