| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_000913 | 3,560,455:1 | +G | 100% | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 3,560,455 | 1 | . | G | 91.7% | 63.8 / ‑1.1 | 24 | pseudogene (151/758 nt) | glpR | DNA‑binding transcriptional repressor GlpR |
| Reads supporting (aligned to +/- strand): ref base . (1/1); new base G (9/12); total (11/13) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| Rejected as polymorphism: E-value score below prediction cutoff. | |||||||||||
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. | |||||||||||
CGATAAACAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGAT‑GG‑C‑CAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATA > NC_000913/3560315‑3560579 | cGATAAACAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGAT‑GG‑cgc > 1:123396/1‑141 (MQ=255) ttGGGGGTTTGCTGCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGGCTGGGTGGCCTTGCGATCGTGCCACGGCGTGCTAACCGAGTTCGAAGCCGGCGCCGCGCCGCCCGGAT‑GG‑CGCAGGACGAGGTTTAGCTCCGc > 2:191027/1‑143 (MQ=255) ttGGGGATTTGTGCCGCCGCTTTGCGGGCGATGGGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGCTCGTGCCACGGCGTGTTAACCGAACTGGAAGGCCGCGTCGCACCGCCATGAT‑GG‑CGCAGGATCAGGTTTTGTTCCGc < 2:147538/143‑1 (MQ=255) ttGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTGACCGCACTGAACGGCCGCGGCGCACACTCGTGAT‑GG‑CACAGGCTCAGGGTGTGcgccgc > 2:232013/1‑143 (MQ=255) ggggggAGGTGCTCCGCGACTTGGCGGGCGGTGCGCTCGTTTTCTTCGGTCTGGGTGGCGTTGCGATCGCGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGAT‑GG‑CGCAGGATCAGGTTTTGCTCCGc < 2:10431/141‑1 (MQ=255) cGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGAT‑GG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGt > 1:472459/1‑143 (MQ=255) cTTTGCGTGCTATGCGCGCTTTTTCTCCGGTCTGGGTGGCTTTGCGATCGTGCCACGGCGTGTTAACCGAGCTGGAAGGCAGCGCCGCACCGCCATGAT‑GG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCgcgg < 2:441544/143‑1 (MQ=255) tGCGGGCGGTGCGCGCGTGTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGAT‑GG‑CGCAGGAGCAGGTTTTGCTCCGCCAGCTCGTTGAGGTCGCGGCGa < 2:297913/143‑1 (MQ=255) gcgggcggGGTGCGCTTTTTGTTCGGGCTTGGTGGCGTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGAT‑GG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGaa < 2:249379/143‑1 (MQ=255) gCGGGCGATGCGCTCTTTTTCTTCGGTCTGGCTGGCCGTGCTATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGAT‑GG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGaa < 1:244887/143‑1 (MQ=255) gcgcTCTTTTTCTTCGGTCCGGGTGGCCTTGCGGTCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGAT‑GG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCg < 1:460920/143‑1 (MQ=255) tttttCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGAT‑GG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTGATTGAGGTCGCGGCGAATAGTCTGCGGGCTGa > 2:289482/1‑143 (MQ=255) cTGGGGGGCCTTGCGAGCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGAT‑GG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGct < 2:308754/143‑1 (MQ=255) tGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGAT‑GG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTAcc > 1:472330/1‑143 (MQ=255) gCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGCT‑GGAC‑CAAATTCATGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAg < 1:111778/143‑1 (MQ=255) gTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGAT‑GG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTAc > 1:201859/1‑143 (MQ=255) tGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGAT‑GG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAGAGGCTCTACCAGCTCTTCGGTAcg > 1:313369/1‑142 (MQ=255) ccACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGAT‑GG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTTGTTGAGGAGGCGCCAAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGa > 1:355280/1‑143 (MQ=255) tgCGTGTTAACCGAACTGGACGGCAGCGCCGCACCGCCATGAT‑GG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATGGAGCTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATa < 1:261116/142‑1 (MQ=255) gCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGG‑G‑CAGGATCAGGTCCTGCTCAGATCGATCAGAAATGGCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATaa > 1:487637/1‑143 (MQ=255) cgggAAGGCAGCGCCGCGCCGCCATGAT‑GG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAAc < 2:316849/141‑1 (MQ=255) aaGGCAGCGCCGCACCGCCATGAT‑GG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTCAACCAGt > 2:169095/1‑143 (MQ=255) ggCAGCGCCGCACGGCCATGAT‑GG‑CGCAGGGTCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTc < 1:416163/143‑1 (MQ=255) ggCAGCGCCGCACCGCCAGGGT‑GG‑CGCAGGATCAGGTTCTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTc < 1:143660/143‑1 (MQ=255) ccgcACCGCCATGAT‑GG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCCAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGCCATAACCCTGCTGTCTAACCAGTTCGatagtc > 2:309087/1‑140 (MQ=255) | CGATAAACAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGAT‑GG‑C‑CAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATA > NC_000913/3560315‑3560579 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |