Align long sequences to genome reference

[Amative]

Hello All,

Anyone can guide me to a good tool to align a file of genes (up to 15K bp) to a genome and can produce SAM formatted output file.

Thank you,

[gaffa]

BWASW (part of the bwa program) works fine for this task.

[Amative]

Thanks gaffa, I'll give it a try , hope it works