What is the fail_reads.bam file?
On the Revio platform, for each hifi_reads.bam
there is one fail_reads.bam
file. This file contains one representative read per ZMW. The ff
tag encodes why each read ended up in this file:
Flag | Description |
---|---|
0x1 | CCS reads with predicted accuracy below QV 20. |
0x2 | Control CCS reads. |
0x4 | Single-stranded CCS reads. |
0x8 | The median full-length subread from molecules that do not produce a CCS read but have at least one full pass. |
0x10 | CCS reads which are a concatenation of the adapter, with possible short non-adapter sequence in between. |
0x20 | CCS reads with miscalled adapter which is enclosed by a sequence and its reverse complement, either spanning to the end. |
0x40 | CCS reads that have one or more adapters close to either end. |