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Gene finding
Gene finding with similarity
Gene finding in Bacteria
Gene finding in Viruses
Next Generation
Gene search
FMAP  Map your sequence to Human genome draft
SCAN2  Comparison of 2 genomic sequences (with Java viewer)
SCAN2a  Comparison of 2 aminoacid sequences (with Java viewer)
DBSCAN  Comparing your sequence with Database (with Java viewer)
EST_map  Mapping your mRNA/EST to Chromosome sequence of Human genome
PROT_MAP  Mapping of a set of proteins on genome
SMAP  Mapping oligonucleotides to genome
BLAST  (NCBI program) Similarity with Predicted proteins in Human genome draft
Genomes Match  Comparison of 2 genomes or chromosomes (with viewer)
Genomes Match 2  New version of comparison of 2 genomes or chromosomes (without viewer)
Genome Match  Java Alignment Browser
Gene explorer
Promoter
Protein location
RNA structure
Protein structure
3d-explorer
SeqMan
Multiple alignment
Analysis of expression data
Plant promoter database
Search and map repeats
Extracting known SNPs

 

 

Comparison of protein sequences

SCAN2a - program for aligning two multimegabyte-size aminoacid sequences (with Java viewer [Help]).

Paste first sequence in here:

or select local file:

Paste second sequence in here:

or select local file:

Choose method:

Normal similarity
Weak similarity

No dynamic programming
Global alignment with tail gaps by dynamic programming
Global alignment without tail gaps by dynamic programming
Local alignment by dynamic programming

Block info only
Fine alignment
Alignment bounds, Block info and fine alignment

In direct chain only
In reverse chain only
In both chains

Use Java viewer

Note. To run applet viewer you need to include linux1.softberry.com in the list of your browser (see instruction).

[Help] 
[Example]
[Example w/o visualization]

Return to page with other programs of group: Alignment / Sequences & genomes

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Last modification date: 19 Mar 2015

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