Hello all, it is my first post on the seqanswers.com forum.
I am studying various alignment cases of Smith-Waterman algorithm.
I have tried the next two sequences for alignment:
>ref1
CAGGCT СТAAAАААСААААААССAAG GACTCG
>r1
CAGGCT СТАААААCAAAAACCAAG GACTCG
Surprisingly I get from http://www.ebi.ac.uk/Tools/psa/embos...ucleotide.html
an alignment with edited original sequences:
The most surprising thing is that flanks are intact, but middle part of sequences partially disappeared.
The result from http://insilico.ehu.es/align/ differs but also is shorter then source sequnces:
I am studying various alignment cases of Smith-Waterman algorithm.
I have tried the next two sequences for alignment:
>ref1
CAGGCT СТAAAАААСААААААССAAG GACTCG
>r1
CAGGCT СТАААААCAAAAACCAAG GACTCG
Surprisingly I get from http://www.ebi.ac.uk/Tools/psa/embos...ucleotide.html
an alignment with edited original sequences:
Code:
ref1 1 CAGGCTAAA-----AAGGACTCG 18 ||||||.|| ||||||||| read1 1 CAGGCTCAAAAACCAAGGACTCG 23
The most surprising thing is that flanks are intact, but middle part of sequences partially disappeared.
The result from http://insilico.ehu.es/align/ differs but also is shorter then source sequnces:
Code:
CAGGCTAAAAAGG-ACTC-G---- 24 |||||| |||| | CAGGCTCAAAAACCAAG-GACTCG 24
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