Multiple alignment

AliBee - Multiple Alignment

Help	Simple query form	Your E-mail address
References	Comments on output

Max. number of motifs (10 to 300)	Length threshold(4 to 50)	Power threshold(2 to 20)
Coincidence ratio(0 to 1)	Minimum letter frequence	Windows width(3 to 7)
Maximum number of shifts(1 to 100)	Minimum homology ratio(0 to 1)	How to process motifs
Method	Gap penalty (in SD units)(1 to 5)	Register size

Matrix	Colors	Motif frequences recalc Yes No	Result Alignment Format:
Tree and Picture Options
Extra tree format	Picture formats	Bootstrap Yes No

You can paste or edit your sequences right here (in FASTA format)

Example:

>SeqName1
MLPTAVLLVL AVSVAARDNA TCDGPCGLRF RQKLESGMRV
MYHNNRRYHT CGGILLNSHW VLTAAHCFKN KKKVT
>SeqName2
IVGGRRAQPQ EFPFLASIQK QGRPFCAGAL VHPRFVLTAA
RQQEQSRQTF SIRSISQNGY DPRQNLNDVL
>SeqName3
SRRTYTLTDY LKSTFR

Last updated - December 15, 2001.
Comments and bug-reports send to Vladimir Nikolaev

DNA/RNA
Blosum 30
Blosum 50
Blosum 62
Dayhoff
Johnson

None
Phylip
Phylip (multiline)
Nexus
Nexus (TREES block only)
Hennig86

None
Slanted
Slanted 2
Rectangular
Rectangular 2
Phylogram
Unrooted
Unrooted 2