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Pairwise Align Protein
Pairwise Align Protein accepts two protein sequences and determines the optimal global alignment. Use Pairwise Align Protein to look for conserved sequence regions.
Paste
sequence one
(in raw sequence or
FASTA format
) into the text area below. Input limit is 2000 characters.
>Human p53 SSSVPSQKTYQGSYGFRLGFLHSGTAKSVTCTYSPALNKMFCQLAKTCPV QLWVDSTPPPGTRVRAMAIYKQSQHMTEVVRRCPHHERCSDSDGLAPPQH LIRVEGNLRVEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCM GGMNRRPILTIITLEDSSGNLLGRNSFEVRVCACPGRDRRTEEENL
Paste
sequence two
(in raw sequence or
FASTA format
) into the text area below. Input limit is 2000 characters.
>Xenopus p53 SCAVPSTDDYAGKYGLQLDFQQNGTAKSVTCTYSPELNKLFCQLAKTCPL LVRVESPPPRGSILRATAVYKKSEHVAEVVKRCPHHERSVEPGEDAAPPS HLMRVEGNLQAYYMEDVNSGRHSVCVPYEGPQVGTECTTVLYNYMCNSSC MGGMNRRPILTIITLETPQGLLLGRRCFEVRVCACPGRDRRTEEDNY
Use the following parameters to specify how alignments are scored.
Scoring matrix
PAM30
PAM70
BLOSUM80
BLOSUM62
BLOSUM45
Penalty for gaps preceding a sequence
5
4
3
2
1
0
-1
-2
-3
-4
-5
Penalty for internal gaps
5
4
3
2
1
0
-1
-2
-3
-4
-5
Penalty for gaps following a sequence
5
4
3
2
1
0
-1
-2
-3
-4
-5
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