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EMBOSS: shuffleseq |
The number of shuffled sequences output can be set by the '-shuffle' qualifier.
% shuffleseq -shuffle 2 Shuffles a set of sequences maintaining composition Input sequence(s): embl:mmam Output sequence [mmam.fasta]:
Mandatory qualifiers: [-sequence] seqall Sequence database USA [-outseq] seqoutall Output sequence(s) USA Optional qualifiers: (none) Advanced qualifiers: -shuffle integer Number of shuffles |
Mandatory qualifiers | Allowed values | Default | |
---|---|---|---|
[-sequence] (Parameter 1) |
Sequence database USA | Readable sequence(s) | Required |
[-outseq] (Parameter 2) |
Output sequence(s) USA | Writeable sequence(s) | <sequence>.format |
Optional qualifiers | Allowed values | Default | |
(none) | |||
Advanced qualifiers | Allowed values | Default | |
-shuffle | Number of shuffles | Any integer value | 1 |
Each run will produce a different sequence. Here is the output from the example above:
>MMAM L48662 Mus musculus (cell line C3H/F2-11) chromosome 12 anti-DNA antibody heavy chain mRNA. ggcggcctccggtcaccaacctaattcggtgtcagtggcggccaagcatcctttatcaca agtcgacccattttcttcgtaccacacaatagctctaacgttcttgtgatagtttaggag ttgcagagcttcgagaggtacactaacaaggaaagagtgcgacaggaaccaaggagcatg aaatgaaacagctcctaaatctccaacgctaagactcggccattgctagtattantataa attcattcacagcccgttagcggccttttaatcacctgaaggcccccatatattaggcgt gacaggtatccaggcggacctttcgttcgtggtaagggtcgaatggagtgctacagtatn ctgaac >MMAM L48662 Mus musculus (cell line C3H/F2-11) chromosome 12 anti-DNA antibody heavy chain mRNA. ccaaaacaatcctagatgaacctctgccgattcaaggcagntagctttctgtaagctcgt ttgagatgctaatgtagccggtgaatagaagcctaggactcgcttcccactttctgcttt aagattatcgagccctacggaatgagctggaatctggtcttaggcattacgaacagnacg ggtggacgggggaccaaaagtggaggggatttctccctgctgacaaaagacactatagta tccccctggcattctagccgtcccgtctcgtgctagtaacggtcacagcaatgggagtct tgtagaacaataacggccgtctatgataccaagtcactttagacgtacaatcaaatctca tcaacc
Note that these two sequences have the same name.
Program name | Description |
---|---|
msbar | Mutate sequence beyond all recognition |