| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,857,143 | 1 | . | A | 44.4% | 50.8 / 76.2 | 36 | coding (51/2562 nt) | mutS | methyl‑directed mismatch repair protein |
| Reads supporting (aligned to +/- strand): ref base . (14/6); new base A (6/10); total (20/16) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 9.10e-02 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.31e-05 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
ACGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑AT‑C‑TCAGGCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAACTGCT > NC_000913/2857038‑2857244 | aCGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCctg < 2:591367/139‑1 (MQ=255)aCGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCATCCCGAGATCctg > 1:329419/1‑139 (MQ=255) tCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATgg > 2:1171189/1‑139 (MQ=255) cccATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGAtt > 2:945546/1‑139 (MQ=255) cATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGttt < 2:923327/121‑1 (MQ=255) cATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGttt > 1:923327/1‑121 (MQ=255) tatCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAAc < 1:1216076/139‑1 (MQ=255) cAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGAT‑AGTC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGaa < 1:202685/135‑1 (MQ=255) cAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCa > 1:174787/1‑92 (MQ=255) cAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCa < 2:174787/92‑1 (MQ=255) cAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGaa > 2:202685/1‑135 (MQ=255) ccGGACATAACCCCCTGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGa < 2:1115000/118‑1 (MQ=255) ccGGACATAACCCCATGGGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGTTGGGTGa > 1:1115000/1‑118 (MQ=255) cATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCctg < 2:305748/85‑1 (MQ=255) cATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCATCCCGAGATCctg > 1:305748/1‑85 (MQ=255) aTGAGTGCAATAGAAAATTTCGACGCCGATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACTACGCAAAAcgcg > 2:899725/1‑139 (MQ=255) tGAGTGCAATAGAAAATTTCGGCGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGa > 2:560276/1‑96 (MQ=255) tGAGTGCAATAGAAAATTTCGGCGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGa < 1:560276/96‑1 (MQ=255) tGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGAT‑AGTC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCaaa > 2:821633/1‑133 (MQ=255) tGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCaaa < 1:821633/133‑1 (MQ=255) gAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGaa > 1:323924/1‑112 (MQ=255) gAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGaa < 2:323924/112‑1 (MQ=255) tGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAACGCGCGTCg > 2:295131/1‑139 (MQ=255) gCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAACGCGCGTCGc > 1:176497/1‑139 (MQ=255) cAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCctgct < 1:471769/79‑1 (MQ=255) cAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCctgct > 2:471769/1‑79 (MQ=255) cAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGt < 2:154147/95‑1 (MQ=255) cAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGt < 2:711481/95‑1 (MQ=255) cAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAAcg < 2:61433/130‑1 (MQ=255) cAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGAT‑AGTC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGt > 1:711481/1‑95 (MQ=255) cAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGt > 1:154147/1‑95 (MQ=255) cAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAAcg > 1:61433/1‑130 (MQ=255) aGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAActg < 2:329419/139‑1 (MQ=255) aaaaTTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAActgct > 2:1454040/1‑139 (MQ=255) acgcccatacgcccatGATGCAGCAGTGAT‑AGTC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATg < 2:612220/102‑1 (MQ=255) acgcccatacgcccatGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATg > 1:612220/1‑102 (MQ=255) | ACGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑AT‑C‑TCAGGCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAACTGCT > NC_000913/2857038‑2857244 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |