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FMAP Example

Fmap - fast mapping nucleotide or protein sequence on genome with finding exon boundaries

Enter sequence in fasta format (from screen or from file):

Sequence:NucleotideAminoacid Select set:
Similarity:StrongWeak Show alignments on picture Select locuses:
Program: Chain:
Use FMAP Direct
Use FMAP, then SCAN2 Reverse
Use SCAN2 (very slow) Both
Search for alignments by gene structure
Skip alignment if irrelevant to gene structure
Search for one best alignment only
Search for best non overlaped alignments
Search for best alternate alignments
Maximal area covered by alignment on target
 Remove trailing X
 Nucleotide specific: Remove polyA tail Remove polyT head
Aminoacid specific:
Join similar aminoacids

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Last modification date: 24 Jul 2007