Find non matching sequences between two RefSeq IDs

Question

[manasishah86]

Hi, I would like to get non aligning sequence and preferably co-ordinates (chr, position) between RefSeq NM_172101 (target of interest) compared to NM_001349727 (non functional paralog)

Can someone please explain maybe with a screenshot of what is the easiest way to achieve this, maybe in BLAST?

Thanks!

Answer 1

[microfuge]

if it is a single one time analysis then blast2sequeces from NCBI could generate a plot and coordinates can be manually noted https://blast.ncbi.nlm.nih.gov/Blast.cgi?PAGE=MegaBlast&PROGRAM=blastn&PAGE_TYPE=BlastSearch&BLAST_SPEC=blast2seq