]> Excludes a set of sequences and writes out the remaining ones (EMBOSS) edit http://bioweb.pasteur.fr/docs/EMBOSS/notseq.html notseq &emboss_init; input Input section sequence sequence -- gapany [sequences] (-sequence) perl " -sequence=$value -sformat=fasta" 1 gapany 8 seqsfile perl 1 required Required section exclude Sequence names to exclude (-exclude) perl " -exclude=$value" 2 Enter a list of sequence names or accession numbers to exclude from the sequences read in. The excluded sequences will be written to the file specified in the 'junkout' parameter. The remainder will be written out to the file specified in the 'outseq' parameter. <BR> The list of sequence names can be separated by either spaces or commas. <BR> The sequence names can be wildcarded. <BR> The sequence names are case independent. <BR> An example of a list of sequences to be excluded is: <BR> myseq, hs*, one two three <BR> a file containing a list of sequence names can be specified by giving the file name preceeded by a '\@', eg: '\@names.dat' output Output section outseq outseq (-outseq) outseq.out perl " -outseq=$value" 3 seqsfile perl 1 outseq_sformat Output format for: outseq fasta fasta gcg gcg phylip phylip embl embl swiss swiss ncbi ncbi nbrf nbrf genbank genbank ig ig codata codata strider strider acedb acedb staden staden text text fitch fitch msf msf clustal clustal phylip phylip phylip3 phylip3 asn1 asn1 fasta perl " -osformat=$value" 4 junkoutseq File of excluded sequences (-junkoutseq) /dev/null perl ($value && $value ne $vdef)? " -junkoutseq=$value" : "" 5 This file collects the sequences which you have excluded from the main output file of sequences. junkoutseq_sformat Output format for: File of excluded sequences fasta fasta gcg gcg phylip phylip embl embl swiss swiss ncbi ncbi nbrf nbrf genbank genbank ig ig codata codata strider strider acedb acedb staden staden text text fitch fitch msf msf clustal clustal phylip phylip phylip3 phylip3 asn1 asn1 fasta perl " -osformat=$value" 6 auto perl " -auto -stdout" 7