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C23: Distinct alleles in long-period repeats (motif > 6bp) keep REF: 'in a repeat' is decided by repeat_span
bugSomething isn't workingSomething isn't workingStatus: Open.C22: Same-length non-equivalent deletions ≥5bp near a deletion row reach Phase 3, which calls them ALT
bugSomething isn't workingSomething isn't workingStatus: Open.C20: ALT carriers whose bases end inside an indel's repeat tract are credited from the CIGAR gap (C10's ALT side)
bugSomething isn't workingSomething isn't workingStatus: Open.O8: OBSERVED_ALLELE / COEXISTING_ALLELE read antisense reads under strandedness enforcement (and skip the NH rescue)
bugSomething isn't workingSomething isn't workingStatus: Open.O7: unmapped mates (flag 0x4) placed at a variant count in mq0_count
bugSomething isn't workingSomething isn't workingStatus: Open.C19: absent base qualities (QUAL '*', read as 0xFF) overflow fragment consensus
bugSomething isn't workingSomething isn't workingStatus: Open.- Status: Open.
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- Status: Open.
- Status: Open.
- Status: Open.