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Online alignment for large fasta files

Hi

I have a fasta genome file that contain 4000 genomic sequences (~ 30Mb size) in it. I would like to align this 4000 sequence to a reference genome. I was trying to use SINA (reference base multiple sequence alignment) in galaxy (https://usegalaxy.org/) however I have got memory error. Is there any online sources that I perhaps can use for this purpose?

Thanks,

genome alignment sequence fasta
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updated by hugo.avila hugo.avila • written by mkh • mkh

1 answer

Hi, try CSAR web. Just upload a reference and you 4000 genomic sequences and you will get an mummer alignment, a fast scaffold and a dot plot. But i really recommend that you perform this type of analyses locally in order to get more control of your work.

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written by hugo.avila hugo.avila

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