| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_017635 | 1,364,786 | 0 | A | T | 21.1% | 83.0 / 12.2 | 38 | V8E (GTA→GAA) | chaA | sodium‑potassium/proton antiporter ChaA |
| Reads supporting (aligned to +/- strand): ref base A (5/25); new base T (8/0); total (13/25) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.63e-05 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGCGGGTTTTTACCGCCTCTTGAGCATTTGACATTATGGTTATCCCTTTGCAGATGAATT > NC_017635/1364739‑1364834 | gcgcCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGCGGGTTTTTAcc < 2:631575/50‑1 (MQ=255)gcgcCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGCGGGGTTTTTcc > 1:1996868/1‑50 (MQ=255) cgcCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGCGGGTTTTTACCg < 1:372752/50‑1 (MQ=255) cgcCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGCGGGTTTTTACCg < 2:1452521/50‑1 (MQ=255) cAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGCGGGTTTTTACCGCct < 1:1247128/50‑1 (MQ=255) cAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGCGGGGTTTTTCCGCct > 1:1345676/1‑50 (MQ=255) aGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGCGGGGTTTTTCcccccc > 1:1740679/1‑48 (MQ=255) aCCGGGAAGATAAGCGAAGTCTCCTTGTGGCGGGTTTTTACCGCCTCTTg < 1:708860/50‑1 (MQ=255) gggAAAATAAGCGAAGTCTCCTTGTGGCGGGTTTTTACCGCCTCTTGAGc < 1:1544268/50‑1 (MQ=255) gAAAATAAGCGAAGTCTCCTTGTGGCGGGGTTTTTTCGCCCCTTTAGCAt > 1:1681895/1‑50 (MQ=255) gAAAATAAGCGAAGTCTCCTTGTGGCGGGGTTTTTTCGCCCCCTGAGCaa > 1:79025/1‑49 (MQ=255) aaaaTAAGCGAAGTCTCCTTGTGGCGGGTTTTTACCGCCTCTTGAGCAtt < 2:306253/50‑1 (MQ=255) aaaTAAGGGAAGTCTCCTTGTGGCGGGTTTTTACCGCCTCTTGAGAAttt < 1:165541/50‑1 (MQ=39) aaaTAAGCGAAGTCTCCTTGTGGCGGGTTTTTACCGCCTCTTGAGCAttt < 2:786248/50‑1 (MQ=255) aaaTAAGCGAAGTCTCCTTGTGGCGGGTTTTTACCGCCTCTTGAGCAttt < 1:325776/50‑1 (MQ=255) aaaTAAGCGAAGTCTCCTTGTGGCGGGTTTTTACCGCCTCTTGAGCAttt < 2:1191040/50‑1 (MQ=255) aaaTAAGCGAAGTCTCCTTGTGGCGGGTTTTTACCGCCTCTTGAGCAttt < 2:1554681/50‑1 (MQ=255) aaTAAGCGAAGTCTCCTTGTGGCGGGGTTTTTTCGCCCCTTTTGCAtttt > 1:1914896/1‑49 (MQ=255) aTAAGCGAAGTCTCCTTGTGGCGGGTTTTTTTCCCCCCTTGAGCAtttta > 1:457899/1‑48 (MQ=255) aTAAGCGAAGTCTCCTTGTGGCGGGGTTTTTTCCCCCCTTTAGCATTTGa > 1:326701/1‑50 (MQ=255) tAAGCGAAGTCTCCTTGTGGCGGGTTTTTACCGCCTCTTGAGCATTTGAc < 1:1376672/50‑1 (MQ=255) aGCGAAGTCTCCTTGTGGCGGGTTTTTACCGCCTCTTGAGCATTTGACa < 1:1770797/49‑1 (MQ=255) aGCGAAGTCTCCTTGTGGCGGGTTTTTACCGCCTCTTGAGCATTTGACAt < 2:974593/50‑1 (MQ=255) gCGAAGTCTCCTTGTGGCGGGTTTTTACCGCCTCTTGAGCATTTGACAtt < 2:1507414/50‑1 (MQ=255) gCGAAGTCTCCTTGTGGCGGGTTTTTACCGCCTCTTGAGCATTTGACAtt < 2:29213/50‑1 (MQ=255) aaGTCTCCTTTTGGCGGGTTTTTACCGCCTCTTGAGCATTTGACATTATg > 1:320214/1‑50 (MQ=255) tctcCTTGTGGCGGGTTTTTACCGCCTCTTGAGCATTTGACATTATGGtt < 1:1394366/50‑1 (MQ=255) tgGCGGGTTTTTACCGCCTCTTGAGCATTTGACATTATGGTTATCCCttt < 2:1822701/50‑1 (MQ=255) tgGCGGGTTTTTACCGCCTCTTGAGCATTTGACATTATGGTTATCCCttt > 1:1046247/1‑50 (MQ=255) ggCGGGTTTTTACCGCCTCTTGAGCATTTGACATTATGGTTATCCCTTTg > 1:802649/1‑50 (MQ=255) gCGGGTTTTTACCGCCTCTTGAGCATTTGACATTATGGTTATCCCTTTg < 1:809632/49‑1 (MQ=255) gggTTTTTACCGCCTCTTGAGCATTTGACATTATGGTTATCCCTTTg > 1:2079208/1‑47 (MQ=255) gggTTTTTACCGCCTCTTGAGCATTTGACATTATGGTTATCCCTTTGCAg < 1:2039864/50‑1 (MQ=255) ggTTTTTACCGCCTCTTGAGCATTTGACATTATGGTTATCCCTTTGCAGa < 2:184005/50‑1 (MQ=255) tttACCGCCTCTTGAGCATTTGACATTATGGTTATCCCTTTGCAGATGa < 2:1781697/49‑1 (MQ=255) tttACCGCCTCTTGAGCATTTGACATTATGGTTATCCCTTTGCAGATGa < 2:398460/49‑1 (MQ=255) tACCGCCTCTTGAGCATTTGACATTATGGTTATCCCTTTGCAGATGAAtt > 2:1200070/1‑50 (MQ=255) tACCGCCTCTTGAGCATTTGACATTATGGTTATCCCTTTGCAGATGAAt < 1:1047920/49‑1 (MQ=255) aCCGCCTCTTGAGCATTTGACATTATGGTTATCCCTTTGCAGATGAAtt < 1:2007207/49‑1 (MQ=255) | GCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGCGGGTTTTTACCGCCTCTTGAGCATTTGACATTATGGTTATCCCTTTGCAGATGAATT > NC_017635/1364739‑1364834 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |