Is this an expected output for
Samtools idxstats? Why is it showing accession instead of chromosome number? most of the NC_... corresponds to a chromosome but why do I have NT and NW genomic scaffold?
Samtools Manuel :
output is TAB-delimited with each line consisting of reference sequence name, sequence length, # mapped read-segments and # unmapped read-segments.
But why do I have have four columns in some?
Samtools idxstats file.bam