| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 1,434,643 | 0 | A | C | 57.9% | 14.6 / 21.3 | 19 | G133G (GGT→GGG) | nifJ | pyruvate:ferredoxin (flavodoxin) oxidoreductase |
| Reads supporting (aligned to +/- strand): ref base A (7/1); new base C (0/11); total (7/12) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.59e-04 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.32e-04 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GGCACGCGGCTTTTCAGCGTCGCGATTTGCGAAATGAGAGCAAAGTCTTGCGCTTCCTGGACGTTTGCTGCACACAACATCGCGCAACCCGTCTGGCGCACCGCCATAACGTCGGAATGATCGCCAAAAATAGAGAGTGCATGTGTGGCAACGGTACGTGCCGCTACATGCAGG > NZ_CP009273/1434557‑1434730 | ggCACGCGGCTTTTCAGCGTCGCGATTTGCGAAATGAGAGCAAAGTCTTGCGCTTCCTGGACGTTTGCTGCACACAACATCGCGCAAccc > 1:801209/1‑90 (MQ=255) cACGCGGCTTTTCAGCGTCGCGATTTGCGAAATGAGAGCAAAGTCTTGCGCTTCCTGGACGTTTGCTGCACACAACATCGCGCAACCCGt > 1:327649/1‑90 (MQ=255) cACGCGGCTTTTCAGCGTCGCGATTTGCGAAATGAGAGCAAAGTCTTGCGCTTCCTGGACGTTTGCTGCACACAACATCGCGCAACCCGt > 2:130374/1‑90 (MQ=255) cgGCTTTTCAGCGTCGCGATTTGCGAAATGAGAGCAAAGTCTTGCGCTTCCTGGACGTTTGCTGCACACAACATCGCGCAACCCGTCTgg > 1:533855/1‑90 (MQ=255) cTTTTCAGCGTCGCGATTTGCAAAATGAGAGCAAAGTTTTGCGCTCCCTGGACGTTTGCTGCACACAACATCGCGAACCCCGTCTGgcgc < 1:480991/90‑1 (MQ=255) aaaTGAGAGAAAAGTCTTGCGCTCCCGGGAGGTTTGCGGCACACAACATCGCCCACCCCGTCTGGCGCACCGCCATAACGTCGGAATGAt < 1:507188/90‑1 (MQ=255) gagaGCGAAGTCTTGCGCTTCCTGGCCGTTTGCTGCACACAACATCGCGCACCCCGTCTGGCGCACCGCCATAACGTCGGAATGATCGcc < 2:39747/90‑1 (MQ=255) agagCAAAGTTTTGCGCTCCCTGGACGTTTGCTGCCCAAAACATCGCGAACCCCGTCGGGCGCACCGCCATAACGTCGGAATGATCGCCa < 2:308833/90‑1 (MQ=255) gTCTTGCGCTTCCTGGACGTTTGCTGCACACAACATCGCGCAACCCGTCTGGCGCACCGCCATAACGTCGGAATGATCGCCAAAAATaga > 2:418685/1‑90 (MQ=255) tCTTGCGCTCCCTGGACGTTTGCTGCACACAACATCGCGCACCCCGTCTGGCGCACCGCCATAACGTCGGAATGATCGCCAAAAATagag < 2:500170/90‑1 (MQ=255) tCTTGCGCTCCCGGGACGTTTGCTGCACACAACACCGCGCACCCCGTCGGGCGCACCGCCATAACGTCGGAATGATCGCCAAAAATagag < 1:178866/90‑1 (MQ=255) cTGGACGTTTGCTGCACACAACAACACCCACCCCGCCTGGCGCCCCGCCATAACGTCGGAATGATCGCCAAAAATAGAGAGTGCAtgtgt < 2:663276/90‑1 (MQ=255) ttGCTGCACACAACATCGCGCAACCCGTCTGGCGCACCGCCATAACGTCGGAATGATCGCCAAAAATAGAGAGTGCATGTGTGGCAACgg > 1:645572/1‑90 (MQ=255) gcACACAACACCCCGCACCCCGTCGGGCCCACCGCCATAACGTCGGAATGATCGCCAAAAATAGAGAGTGCATGTGTGGCAACGGTACGt < 1:418685/90‑1 (MQ=255) gcACAAAACATCGCCCAACCCGTCTGGCGCCCCGCCATAACGTCGGAATGATCGCCAAAAATAGAGAGTGCATGTGTGGCAACGGTACGt < 2:415656/90‑1 (MQ=255) ccacccaACACCGCGCACCCCGTCTGGCGCACCGCCATAACGTCGGAATGATCGCCAAAAATAGAGAGTGCATGTGTGGCAACGGTACGt < 2:175903/89‑1 (MQ=255) gcgcACCCCGTCGGGCGCCCCGCCATAACGTCGGAATGATCGCCAAAAATAGAGAGTGCATGTGTGGCAACGGTACGTGCCGCTACATGc < 2:698280/90‑1 (MQ=255) cgcACCCCGTCTGGCGCACCGCCATAACGTCGGAATGATCGCCAAAAATAGAGAGTGCATGTGTGGCAACGGTACGTGCCGCTACATGCa < 2:801209/90‑1 (MQ=255) cAACCCGTCTGGCGCACCGCCATAACGTCGGAATGATCGCCAAAAATAGAGAGTGCATGTGTGGCAACGGTACGTGCCGCTACATGCAgg > 1:366540/1‑90 (MQ=255) | GGCACGCGGCTTTTCAGCGTCGCGATTTGCGAAATGAGAGCAAAGTCTTGCGCTTCCTGGACGTTTGCTGCACACAACATCGCGCAACCCGTCTGGCGCACCGCCATAACGTCGGAATGATCGCCAAAAATAGAGAGTGCATGTGTGGCAACGGTACGTGCCGCTACATGCAGG > NZ_CP009273/1434557‑1434730 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |