Open pdimens opened 4 months ago
Looking over the output of some test [haplotag] data, column 9 (TLEN) is showing 0 for many alignments, even if the alignment positions are present.
TLEN
0
Example record:
A00470:481:HNYFWDRX2:1:2239:18150:28354_A61C72B93D96_GAACGACTACCACAG 113 2R 1555 54 150M = 1555 0 AAAGAATAAATTGACTAAGTTATGTCATTTTAAGCGGTCAAAATGGGTGAATTTCCGATTTCAAGTACCAGGCGAACAGAAGACACCTTCTAGAGATTCTGTTCAACTGGTAAGCAAAAACAGTAAATTGCCTAAGTTTTACATTATAAG FFFFFFFFFFFFFFFFFF:FFFFFFFFFFFF,FFFFFFFFFF,FFF:F:FF:FF:FFFFFFFFFFFFFFFFFF:FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF NM:i:2 BX:Z:A61C72B93D96 XG:f:1 MI:i:66006 XF:i:1 RG:Z:sample1
TLEN = 0 alignment start = 1554 alignemnt end = 1704
Looking over the output of some test [haplotag] data, column 9 (
TLEN) is showing0for many alignments, even if the alignment positions are present.Example record:
TLEN = 0 alignment start = 1554 alignemnt end = 1704