How to compare contigs with an existing protein from a species ?

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9.8 years ago

carerjose • 0

I have a few contigs and I need to compare them with a known protein of a species. I dropped the contigs in BlastX and since I got very low e-values, I need arrange and assembly them in order that the consensus of the contigs seems very similar to the know protein sequence.

Is there any software or written tutorial that can simplified this process?

I was thinking about using a software that can allow to align all the contigs that I have and download the DNA sequence of the reference protein.

dna contig blastx sequence • 2.4k views

ADD COMMENT • link updated 2.6 years ago by Ram 44k • written 9.8 years ago by carerjose • 0

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Is not really clear what you want to do. You have contigs, do you want to predict ORF in them and look if among the ORFs there are specific protein of interest?

ADD REPLY • link updated 2.6 years ago by Ram 44k • written 9.8 years ago by dago ★ 2.8k

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Yes, that would be of so much help.

ADD REPLY • link updated 2.6 years ago by Ram 44k • written 9.8 years ago by carerjose • 0

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Can you provide more details, which organism are you working with?

ADD REPLY • link updated 2.6 years ago by Ram 44k • written 9.8 years ago by dago ★ 2.8k

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