After I run makeblastdb against a fasta file, I get nhr, nin, nog, nsd, nsi and nsq files.
Questions
1) What do these file extensions mean?
2) Do these files replace the original chrY.fa file which was indexed, or are they themselves indexes intended to be used in conjunction with the original .fa file?
-rw-rw-r-- 1 sean sean 58M Mar 20 2009 chrY.fa -rw-rw-r-- 1 sean sean 43 Sep 4 13:32 chrY.fa.nhr -rw-rw-r-- 1 sean sean 96 Sep 4 13:32 chrY.fa.nin -rw-rw-r-- 1 sean sean 36 Sep 4 13:32 chrY.fa.nog -rw-rw-r-- 1 sean sean 18 Sep 4 13:32 chrY.fa.nsd -rw-rw-r-- 1 sean sean 59 Sep 4 13:32 chrY.fa.nsi -rw-rw-r-- 1 sean sean 15M Sep 4 13:32 chrY.fa.nsq