Sequence Type

• Sequence Type dna protein

Options

• Alignment full fast
• DNA Matrix IUB Identity
• Protein Weight Matrix GONNET BLOSUM PAM Identity
• Open Gap Penalty default 1 2 5 10 25 50 100
• End Gap Penalty default 10 20
• Gap Extension Penalty default 0.05 0.5 1.0 2.5 5.0 7.5 10.0
• Gap Separation Penalty default 10 9 8 7 6 5 4 3 2 1
• Gap Penalty default 1 2 3 4 5 10 25 50 100 250 500
• kTuple (Word Size) default 1 2 3 4 5
• Window Length default 10 9 8 7 6 5 4 3 2 1 0
• Score Type percent absolute
• Top Diagonals default 10 9 8 7 6 5 4 3 2 1
• Output Format aln gcg MSF gde pir phylip nexus
• Output Order aligned input

Input Sequences (100Kb / 100 Sequence Limit)

Upload a file: OR Paste in sequences in FASTA format >Example1 CGGTCTATTTGGGGATCGAACCCATGACGGGCATGTTGTTAAGTCGTA >Example2 CGGTCTATTTGGGGATTGAACCCATGACGGGCATGTTGTTAAGTCGTA >Example3 CGGTCTATTTGGGGATTTTACCCATGACGGGCATGTTGTTAAGTCGTA

Job Control