software that aligns markers from different assemblies and merges names?

craigledee · 08-26-2013, 02:06 AM

Heya,

I've got a bunch of markers that I'd like to align to two different genomes and make a consensus sequence that will sport a concatenated name representing the approximate physical location of a marker in each genome. E.g.

>seq_name_from_alignment2
ACTGT

>seq_name_from_alignment1
ACTGT

= >seq_name_from_alignment1 seq_name_from_alignment2
ACTGT

Cap3 outputs the sequences that went into making a consensus, so I could pull them out, but is there any software capable of doing this in a less silly way?

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08-26-2013, 02:06 AM	#1
craigledee Junior Member Location: Canberra Join Date: Jan 2013 Posts: 2	software that aligns markers from different assemblies and merges names? Heya, I've got a bunch of markers that I'd like to align to two different genomes and make a consensus sequence that will sport a concatenated name representing the approximate physical location of a marker in each genome. E.g. >seq_name_from_alignment2 ACTGT >seq_name_from_alignment1 ACTGT = >seq_name_from_alignment1 seq_name_from_alignment2 ACTGT Cap3 outputs the sequences that went into making a consensus, so I could pull them out, but is there any software capable of doing this in a less silly way?