| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | NZ_CP009273 | 3,452,746 | G→T | G350V (GGC→GTC) | gspE → | type II secretion system ATPase GspE |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,452,746 | 0 | G | T | 92.0% | 169.8 / 8.5 | 50 | G350V (GGC→GTC) | gspE | type II secretion system ATPase GspE |
| Reads supporting (aligned to +/- strand): ref base G (3/1); new base T (23/23); total (26/24) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 6.11e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.66e-01 | |||||||||||
CGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGGCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTATCGCGCAACGTCTGGTTCGTCGCCTGTGTCCGCAATGCCGACAATTCACGCCCGTATCACCC > NZ_CP009273/3452610‑3452876 | cgcgcCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGtcg > 1:888853/1‑139 (MQ=255)cgcgcCATACTTCGCAAGGACCCGGATGTCGTCATGGTGGGGGAAATGCGTGATACAGAAGCCGCACAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTCCATCAgg < 2:513199/137‑1 (MQ=255) cgcCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGTCGCa < 1:736244/139‑1 (MQ=255) cAGGACCCGGATGTCGTCATGGTGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTcc < 2:677557/139‑1 (MQ=255) gACCCGGATGTCGTCATGGTGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCcgc > 1:1054011/1‑138 (MQ=255) gATGTCGTCATGGTGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATgg > 1:1116597/1‑139 (MQ=255) tcgtcATGGTGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGt > 2:249689/1‑139 (MQ=255) tcgtcATGGTGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGGCGCAGTGACCCGGCTCCGCGACATGGGCGt < 2:344402/139‑1 (MQ=255) tcgtcATGGTGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGGCGCAGTGACCCGGCTCCGCGACATGGGCGt > 1:344402/1‑139 (MQ=255) gggggAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTc > 1:270005/1‑139 (MQ=255) ggggAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTc < 1:249689/138‑1 (MQ=255) ggAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTg > 2:1181901/1‑139 (MQ=255) aTTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCttt > 1:1160276/1‑139 (MQ=255) aaaCCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGc < 1:237804/139‑1 (MQ=255) gcgcAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGa > 1:627918/1‑139 (MQ=255) gcAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGAtt < 2:888853/139‑1 (MQ=255) cAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGGCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTa > 1:638299/1‑139 (MQ=255) gCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTATcgcg < 2:48789/138‑1 (MQ=255) gCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTATcgcg < 1:1011893/138‑1 (MQ=255) cGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTATCGCGCa < 1:125908/139‑1 (MQ=255) aGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTATCGCGCAACGTc < 2:1116597/138‑1 (MQ=255) aGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTATCGCGCAACGTCt > 1:570439/1‑139 (MQ=255) gCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGa > 2:401862/1‑116 (MQ=255) gCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGa < 1:401862/116‑1 (MQ=255) gCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTATCGCGCAACGTCTGGTtcgt > 1:232657/1‑139 (MQ=255) aCCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTATCGCGCAACGTCTGGTtcgtcg < 2:627918/137‑1 (MQ=255) ccGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTATcgcg > 1:87810/1‑119 (MQ=255) ccGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTATcgcg < 2:1267943/119‑1 (MQ=255) ccGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTATcgcg < 2:87810/119‑1 (MQ=255) ccGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTATcgcg > 1:1267943/1‑119 (MQ=255) cATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTATCGCGCAACGTCTGGTTCGTCGCCTGTGTc < 1:1080530/139‑1 (MQ=255) tCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGc < 1:686622/99‑1 (MQ=255) tCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGc > 2:686622/1‑99 (MQ=255) tcAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTgg < 1:883663/88‑1 (MQ=255) tcAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTgg > 2:883663/1‑88 (MQ=255) tcAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTATCGCGCAACGTCTGGTTCGTCGcc < 2:138049/121‑1 (MQ=255) tcAACACTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTATCGCGCAACGTCTGGTTCGTCGcc > 1:138049/1‑121 (MQ=255) cacTCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTATCGCGCAACGTCTGGTTCGTCGCCTGTGTCCGCAATGCCGACAAtt < 2:570439/139‑1 (MQ=255) tCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTATCGCGCAACGTCTGGTTCGTCGCCTGTGTCCGCAATGCCGACAATTCAc > 1:39305/1‑139 (MQ=255) tCCACACTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTATCGCGCAACGTCTGGTTCGTCGCCTGTGTCCGCAATGCCGACAATTCAc > 1:258832/1‑139 (MQ=255) cacaCTAACAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTACCGCGCAACGTCTGGTTCGTCGCCTGTGTCCGCAATGCCGACAATTCACGc > 1:528340/1‑139 (MQ=255) aCAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTATCGCGCAACGTCTGGTTCGTCGCCTGTGTCCGCAATGCCGACAATTCACGCCCGTAt < 2:648640/138‑1 (MQ=255) aCAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTATCGCGCAACGTCTGGTTCGTCGCCTGTGTCCGCAATGCCGACAATTCACGCCCGTATc < 2:270005/139‑1 (MQ=255) cAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTcc > 2:854500/1‑67 (MQ=255) cAGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTcc < 1:854500/67‑1 (MQ=255) cAGTGCATCAGGCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTATCGCGCAACGTCTGGTTCGTCGCCTGTGTCCGCAATGCCGACAATTCACGCCCGTATCa > 2:249890/1‑139 (MQ=255) aGTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTATCGCGCAACGTCTGGTTCGTCGCCTGTGTCCGCAATGCCGACAATTCACGCCCGTATCAc < 1:191113/139‑1 (MQ=255) gTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTATCGCGCAACGTCTGGTTCGTCGCCTGTGTCCGCAATGCCGACAATTCACGc < 2:1018335/129‑1 (MQ=255) gTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTATCGCGCAACGTCTGGTTCGTCGCCTGTGTCCGCAATGCCGACAATTCACGc > 1:1018335/1‑129 (MQ=255) gTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTATCGCGCAACGTCTGGTTCGTCGCCTGTGTCCGCAATGCCGACAATTCACGCCCGTATCAcc > 1:398364/1‑139 (MQ=255) gTGCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTATCGCGCAACGTCTGGTTCGTCGCCTGTGTCCGCAATGCCGACAATTCACGCCCGTATCAcc > 2:147619/1‑139 (MQ=255) gCATCAGTCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTATCGCGCAACGTCTGGTTCGTCGCCTGTGTCCGCAATGCCGACAATTCACGCCCGTATCAccc > 2:368121/1‑138 (MQ=255) | CGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGAAATTCGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAGTGCATCAGGCGCAGTGACCCGGCTCCGCGACATGGGCGTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTATCGCGCAACGTCTGGTTCGTCGCCTGTGTCCGCAATGCCGACAATTCACGCCCGTATCACCC > NZ_CP009273/3452610‑3452876 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |