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EMBOSS: wordmatch |
% wordmatch sw:hba_human sw:hbb_human Output file [hba_human.wordmatch]: Word size [4]: % more hba_human.wordmatch FINALLY length = 3 HBA_HUMAN HBB_HUMAN Length 58 63 5 14 15 4 116 121 4
Mandatory qualifiers: [-asequence] sequence Sequence USA [-bsequence] sequence Sequence USA [-outfile] outfile Output file name -wordsize integer Word size Optional qualifiers: (none) Advanced qualifiers: -afeatout featout File for output of normal tab delimted gff's -bfeatout featout File for output of normal tab delimted gff's |
Mandatory qualifiers | Allowed values | Default | |
---|---|---|---|
[-asequence] (Parameter 1) |
Sequence USA | Readable sequence | Required |
[-bsequence] (Parameter 2) |
Sequence USA | Readable sequence | Required |
[-outfile] (Parameter 3) |
Output file name | Output file | <sequence>.wordmatch |
-wordsize | Word size | Integer 2 or more | 4 |
Optional qualifiers | Allowed values | Default | |
(none) | |||
Advanced qualifiers | Allowed values | Default | |
-afeatout | File for output of normal tab delimted gff's | Writeable feature table | unknown.gff |
-bfeatout | File for output of normal tab delimted gff's | Writeable feature table | unknown.gff |
Program name | Description |
---|---|
dotmatcher | Displays a thresholded dotplot of two sequences |
polydot | Displays all-against-all dotplots of a set of sequences |
seqmatchall | Does an all-against-all comparison of a set of sequences |
stssearch | Searches a DNA database for matches with a set of STS primers |
supermatcher | Finds a match of a large sequence against one or more sequences |