Hi,
I have generated plant mitochondrial assembly for which I would like to find contamination from chloroplast as well as nuclear genome. I have also run BlastN using same species nuclear genome and chloroplast genome database, and now with results I have some alignments with multiple scaffolds generated.
My question is, if it is wise cutting down sequences from assembly which are having high identity with substantive e-value with subject sequences or I need to see some other criteria along with identity and e-value?
Any help would be highly appreciated...
I have generated plant mitochondrial assembly for which I would like to find contamination from chloroplast as well as nuclear genome. I have also run BlastN using same species nuclear genome and chloroplast genome database, and now with results I have some alignments with multiple scaffolds generated.
My question is, if it is wise cutting down sequences from assembly which are having high identity with substantive e-value with subject sequences or I need to see some other criteria along with identity and e-value?
Any help would be highly appreciated...
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