Thank you for your comment.
In article <4jdjbm$mn7 at ratatosk.uio.no> rodrigol at biotek.uio.no (Rodrigo Lopez) writes:
> ClustalW can write GCG's MSF format. Please check the following WWW page:
I know that. But I have already aligned 8000 bp x 20 seqs.,
which took me about a week to get the result. So, I would like
to convert it to MSF.
> readseq is another program that can convert multiple sequence alignment files
> from/to a variety of formats including GCG's MSF, clustal and phylip.
I tried to use readseq, but failed:
BEFORE (filename is temp.aln):
CLUSTAL V multiple sequence alignment
hpv01 GTTAACTACCATCATTCATTATTCTAGTTACAACAAGAACCTAGGAGTTAT-----ATGC
hpv02 ATAATGTATAACTATAA-------TCCTT-TATTTAAAAATAGGGTGTGACCGAAAACGG
hpv03 TCTAACTATAATTATAAATAACAATGCACATAATAAAAAGTAGGGAGTAACCGAAAACGG
AFTER (filename is temp.msf):
temp.msf MSF: 29096 Type: N January 01, 1776 12:00 Check: 7280 ..
Name: temp.aln Len: 29096 Check: 7280 Weight: 1.00
//
temp.aln CLUSTALVmu ltiplesequ encealignm enthpvGTTA ACTACCATCA
temp.aln TTCATTATTC TAGTTACAAC AAGAACCTAG GAGTTAT--- --ATGChpvA
temp.aln TAATGTATAA CTATAA---- ---TCCTT-T ATTTAAAAAT AGGGTGTGAC
temp.aln CGAAAACGGh pvTCTAACTA TAATTATAAA TAACAATGCA CATAATAAAA
Readseq, really, can covert Clustal to MSF?
Or, new version exists? # I used to version 1Feb93.
Regards,
# Sorry for my poor English.
--
Jun Ishikawa, Ph.D. National Institute of Health
(jun at nih.go.jp) Dept. of Bioactive Molecules
Tokyo, JAPAN
