STRETCHER : Finds the best global alignment between two sequences (EMBOSS)

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input Section

advanced Section

output Section

input Section

sequencea -- any [single sequence] (-sequencea) : please enter either :

the name of a file:
or the actual data here:

(sequence format)

sequenceb [single sequence] (-sequenceb) : please enter either :

the name of a file:
or the actual data here:

(sequence format)

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advanced Section

datafile (-datafile)
gappenalty -- enter a number (-gappenalty)
gaplength -- enter a number (-gaplength)

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output Section

outfile (-outfile)
Alignment output format (-aformat) ? [default] default fasta MSF

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Some explanations about the options

input Section
enter either the name of a file or the actual data: if you are using Netscape 2.x or later, you can select a file by typing its name, or better, by selecting it with the Netscape file browser (Browse button); OR you can type your data in the next area, or cut and paste it from another application.; (but not both)
advanced Section
datafile (-datafile): Matrix file
gappenalty -- enter a number (-gappenalty): gappenalty Allowed values: Positive integer
gaplength -- enter a number (-gaplength): gap length penalty Allowed values: Positive integer
Sequence format: The sequence will be automatically converted in the format needed for the program; providing you enter a sequence either:; in plain (raw) sequence format or in one of the following known formats:; IG,GenBank,NBRF,EMBL,GCG,DNAStrider,Fitch,fasta,Phylip,PIR,MSF,ASN,PAUP,CLUSTALW; You may enter in the text area a database entry code, or an accession number, in this form:
database:entry_name
or:
database:accession.

Pise form generator version: 5.a (16 Dec 2002 11:55)