| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | NZ_CP009273 | 518,671 | (T)9→8 | intergenic (+385/‑46) | ybbP → / → rhsD | ABC transporter permease/rhs element protein RhsD |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 518,663 | 0 | T | . | 98.0% | 218.0 / ‑1.9 | 51 | intergenic (+377/‑54) | ybbP/rhsD | ABC transporter permease/rhs element protein RhsD |
| Reads supporting (aligned to +/- strand): ref base T (1/0); new base . (28/22); total (29/22) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.94e-01 | |||||||||||
TGCTAAAAATGTTAGTTTAATAAAATATTGAAAGTGACCTGTAATAACAGTTGTTGTTGATTGAGAACAAATAAGTTTATGTGAAAAATATATAAATACATTAGCTGGTCTTGTGTGTCATTTTATTTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAGCGGCGCGTCAGGGAGATATGACTCAGTATGGCGGTCCCATTGTCCAGGGTTCGGCAGGTGT > NZ_CP009273/518538‑518793 | tgCTAAAAATGTTAGTTTAATAAAATATTGAAAGTGACCTGTAATAACAGTTGTTGTTGATTGAGAACAAATAAGTTTATGTGAAAAATATATAAATACATTAGCTGGTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGc > 2:916892/1‑138 (MQ=255) cTAAAAATGTTAGTTTAATAAAATATTGAAAGTGACCTGTAATAACAGTTGTTGTTGATTGAGAACAAATAAGTTTATGTGAAAAATATATAAATACATTAGCTGGTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTaa > 2:1066988/1‑139 (MQ=255) aaaaTGTTAGTTTAATAAAATATTGAAAGTGACCTGTAATAACAGTTGTTGTTGATTGAGAACAAATAAGTTTATGTGAAAAATATATAAATACATTAGCTGGTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAaca > 1:1168554/1‑138 (MQ=255) ataaAATATTGAAAGTGACCTGTAATAACAGTTGTTGTTGATTGAGAACAAATAAGTTTATGTGAAAAATATATAAATACATTAGCTGGTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACa < 2:6806/138‑1 (MQ=255) taaAATATTGAAAGTGACCTGTAATAACAGTTGTTGTTGATTGAGAACAAATAAGTTTATGTGAAAAATATATAAATACATTAGCTGGTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAAt < 2:431377/139‑1 (MQ=255) aaaGTGACCTGTAATAACAGTTGTTGTTGATTGAGAACAAATAAGTTTATGTGAAAAATATATAAATACATTAGCTGGTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAgg > 1:920043/1‑139 (MQ=255) aaGTGACCTGTAATAACAGTTGTTGTTGATTGAGAACAAATAAGTTTATGTGAAAAATATATAAATACATTAGCTGGTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAggg < 2:615681/139‑1 (MQ=255) aGTGACCTGTAATAACAGTTGTTGTTGATTGAGAACAAATAAGTTTATGTGAAAAATATATAAATACATTAGCTGGTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAAcaca > 2:802233/1‑113 (MQ=255) aGTGACCTGTAATAACAGTTGTTGTTGATTGAGAACAAATAAGTTTATGTGAAAAATATATAAATACATTAGCTGGTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAAcaca < 1:802233/113‑1 (MQ=255) gTGACCTGTAATAACAGTTGTTGTTGATTGAGAACAAATAAGTTTATGTGAAAAATATATAAATACATTAGCTGGTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCa < 2:758104/139‑1 (MQ=255) gTGACCTGTAATAACAGTTGTTGTTGATTGAGAACAAATAAGTTTATGTGAAAAATATATAAATACATTAGCTGGTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCa < 1:1066988/139‑1 (MQ=255) aCCTGTAATAACAGTTGTTGTTGATTGAGAACAAATAAGTTTATGTGAAAAATATATAAATACATTAGCTGGTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACtt > 1:1251940/1‑139 (MQ=255) aCCTGTAATAACAGTTGTTGTTGATTGAGAACAAATAAGTTTATGTGAAAAATATATAAATACATTAGCTGGTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACtt > 1:803341/1‑139 (MQ=255) tgttgttgATTGAGAACAAATAAGTTTATGTGAAAAATATATAAATACATTAGCTGGTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGaaaa > 1:152502/1‑139 (MQ=255) tgttgttgATTGAGAACAAATAAGTTTATGTGAAAAATATATAAATACATTAGCTGGTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGaaaa > 1:2029/1‑139 (MQ=255) tgttgttgATTGAGAACAAATAAGTTTATGTGAAAAATATATAAATACATTAGCTGGTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGaaaa > 2:699621/1‑139 (MQ=255) tgttgttgATTGAGAACAAATAAGTTTATGTGAAAAATATATAAATACATTAGCTGGTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGaaaa > 1:367948/1‑139 (MQ=255) tgttgttgATTGAGAACAAATAAGTTTATGTGAAAAATATATAAATACATTAGCTGGTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGaaaa > 1:689126/1‑139 (MQ=255) tgttgttgATTGAGAACAAATAAGTTTATGTGAAAAATATATAAATACATTAGCTGGTCTTGTGTGTCATTTTA‑‑TTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAAc > 1:721484/1‑139 (MQ=255) ttgattgaGAACAAATAAGTTTATGTGAAAAATATATAAATACATTAGCTGGTCTTGTGTGTCATTTTA‑‑TTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAgcg < 2:721484/139‑1 (MQ=255) attgaGAACAAATAAGTTTATGTGAAAAATATATAAATACATTAGCTGGTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAgcgg < 2:689126/138‑1 (MQ=255) tAAGTTTATGTGAAAAATATATAAATACATTAGCTGGTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAGCGGCGCGTCAGGgaga < 2:244586/139‑1 (MQ=255) aGTTTATGTGAAAAATATATAAATACATTAGCTGGTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAGCGGCGCGTCAGGGAGata < 2:1057382/139‑1 (MQ=255) tgtgtgAAAATTATATAAATACAGTAGCTGGTCTTGTGTGTCTTTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCTCTTTATATGAGCGGAAAACCAGCGGCGCGTCAGGGAGATATGa < 1:532365/136‑1 (MQ=255) aaaaaTATATAAATACATTAGCTGGTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAGCGGCGCGTCAGGGAGATATGACTCAGTa < 1:916892/139‑1 (MQ=255) aaaaaTATATAAATACATTAGCTGGTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAGCGGCGCGTCAGGGAGATATGACTCAGTa > 1:938649/1‑139 (MQ=255) aaTACATTAGCTGGTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAGCGGCGCGTCAGGGAGATATGACTCAGTATGGCGGTCCCa < 2:152502/139‑1 (MQ=255) ttAGCTGGTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGata < 1:1050255/51‑1 (MQ=255) ttAGCTGGTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGata > 2:1050255/1‑51 (MQ=255) tAGCTGGTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAGCGGCGCGTCAGGGAGATATGACTCAGTATGGCGGTCCCa > 1:527055/1‑132 (MQ=255) tAGCTGGTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAGCGGCGCGTCAGGGAGATATGACTCAGTATGGCGGTCCCa < 2:527055/132‑1 (MQ=255) ggTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAGCGGCGCGTCAGGGAGATATGa > 1:535397/1‑109 (MQ=255) ggTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAGCGGCGCGTCAGGGAGATATGa < 2:535397/109‑1 (MQ=255) gTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAGCGGCGCGTCAGGGAGATATGACTCAGTATGGCGGTCCCATTTTCCAGGGTTc > 1:413977/1‑139 (MQ=255) gTCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAGCGGCGCGTCAGGGAGATATGACTCAGTATGGCGGTCCCATTGTCCAGGGTTc > 1:1075993/1‑139 (MQ=255) tCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGc > 1:520499/1‑76 (MQ=255) tCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGc < 2:520499/76‑1 (MQ=255) tCTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAGCGGCGCGTCAGGGAGATATGACTCAGTATGGCGGTCCCATTGTCCAGGGGTCg > 1:1209887/1‑139 (MQ=255) cTTGTGTGTCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAGCGGCGCGTCAGGGAGATATGACTCAGTATGGCGGTCCCATTGTCCCGGGTTCgg > 2:889979/1‑139 (MQ=255) gtgtgtCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAGCGGCGCGTCAGGGAGATATGACTCAGTATGGCGGTCCCATTGTCCAGGGTTCGGc < 2:995080/137‑1 (MQ=255) gtgtgtCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAGCGGCGCGTCAGGGAGATATGACTCAGTATGGCGGTCCCATTGTCCAGGGTTCGGc < 2:938649/137‑1 (MQ=255) gtgtgtCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAGCGGCGCGTCAGGGAGATATGACTCAGTATGGCGGTCCCATTGTCCAGGGTTCGGCAg > 1:22647/1‑139 (MQ=255) tgtgtCATTTTATTTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAGCGGCGCGTCAGGGAGATATGACTCAGTATGGCGGTCCCATTGTCCAGGGGTCGGCAg > 1:909437/1‑139 (MQ=255) tCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAGCGGCGCGTCAGGGAGATATGACTCAGTATGGCGGTCCCCATGTCCAGGGGTCGGCAGgggt > 2:659269/1‑138 (MQ=255) tCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAGCGGCGCGTCAGGGAGATATGACTCAGTATGGCGGTCCCATTGTCCAGGGTTCGGc > 1:262057/1‑132 (MQ=255) tCATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAGCGGCGCGTCAGGGAGATATGACTCAGTATGGCGGTCCCATTGTCCAGGGTTCGGc < 2:262057/132‑1 (MQ=255) cATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAGCGGCGCGTCAg < 1:1014164/87‑1 (MQ=255) cATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAGCGGCGCGTCAg > 2:1014164/1‑87 (MQ=255) cATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAGCGGCGCGTCAGGGAGATATGACTCAGTATGGCGGTCCCATTGTCCCGGGGTCGGCAGgggt > 2:702502/1‑137 (MQ=255) cATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAGCGGCGCGTCAGGGAGATATGACTCAGTATGGCGGTCCCATTGTCCAGGGTTCGGc < 1:379826/131‑1 (MQ=255) cATTTTA‑TTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAGCGGCGCGTCAGGGAGATATGACTCAGTATGGCGGTCCCATTGTCCAGGGTTCGGc > 2:379826/1‑131 (MQ=255) tttta‑ttttTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAGCGGcgcg > 1:1210317/1‑81 (MQ=255) tttta‑ttttTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAGCGGcgcg < 2:1210317/81‑1 (MQ=255) | TGCTAAAAATGTTAGTTTAATAAAATATTGAAAGTGACCTGTAATAACAGTTGTTGTTGATTGAGAACAAATAAGTTTATGTGAAAAATATATAAATACATTAGCTGGTCTTGTGTGTCATTTTATTTTTTTTTGTTGCTAACACAGGGATATGAACAATAACTAAAAGGGCACTTTATATGAGCGGAAAACCAGCGGCGCGTCAGGGAGATATGACTCAGTATGGCGGTCCCATTGTCCAGGGTTCGGCAGGTGT > NZ_CP009273/518538‑518793 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |