I have sequenced many RNA paired-end reads, and mapped to genome reference sequence, and now I want to know whether the read is mapped correctly. And from the read identifier, for example:
2, I know this read is come from the range [4847775,4887990],and the segment range is [917,1137], but I am still not clear how to get the exact genomic start position of the read? Is it possible to get it from the read identifier? If not, is there a way to get the exact genomic start position of a read? Thank you very much.
the genomic positions of the origins for all sequenced reads are in the BED file which is output after sequencing.