| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | NC_000913 | 1,428,875 | T→C | pseudogene (80/189 nt) | lomR → | pseudogene, Rac prophage lom homolog,Phage or Prophage Related, interrupted by IS5 and N‑ter deletion |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 1,428,875 | 0 | T | C | 92.9% | 80.0 / ‑1.4 | 28 | pseudogene (80/189 nt) | lomR | pseudogene, Rac prophage lom homolog,Phage or Prophage Related, interrupted by IS5 and N‑ter deletion |
| Reads supporting (aligned to +/- strand): ref base T (1/1); new base C (13/13); total (14/14) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.41e-01 | |||||||||||
GGATGCGCTCCGGATGAATATGATGATCTCATATCAGGAACTTGTTCGCACCTTCCCAAGGGGAAAACGCACGACGTGCTGACCGGAAGTGATGACGGTCGCCACAGCAACACGTCTCTGGCGTGGGGAGCTGGCGTGCAGTTTAACCCGACCGAATCCGTGGCCATTGATATTGCTTATGAAGGCCCCGGCAGTGGCGACTGGCGCACTGACGGTTTCATCGTGGGTGTCGGTTATAAGTTCTGATTAGCCAGGTAACAC > NC_000913/1428739‑1428999 | ggATGCGCTCCGGATGAATATGATGATCTCATATCAGGAACTTGTTCGCACCTTCCCAAGGGGAAAACGCACGACGTGCTGACCGGAAGTGATGACGGTCGCCACAGCAACACGTCTCTGGCGTGGGGAGCTGgcgcgc > 2:549666/1‑139 (MQ=255) tgatCTCATATCAGGAACTTGTTCGCACCTTCCCAAGGGGAAAACGCACGACGTGCTGACCGGAAGTGATGACGGTCGCCACAGCAACACGTCTCTGGCGTGGGGAGCTGGCGCGCAGTTTAACCCGACCGAATCCGTg < 2:788976/139‑1 (MQ=255) tgatCTCATATCAGGAACTTGTTCGCACCTTCCCAAGGGGAAAACGCACGACGTGCTGACCGGAAGTGATGACGGTCGCCACAGCAACACGTCTCTGGCGTGGGGAGCTGGCGCGCAGTTTAACCCGACCGAATCCGTg < 1:549666/139‑1 (MQ=255) tctcATATCAGGAACTTGTTCGCACCTTCCCAAGGGGAAAACGCACGACGTGCTGACCGGAAGTGATGACGGTCGCCACAGCAACACGTCTCTGGCGTGGGGAGCTGGCGCGCAGTTTAACCCGACCGAATCCGTg > 1:333560/1‑136 (MQ=255) tctcATATCAGGAACTTGTTCGCACCTTCCCAAGGGGAAAACGCACGACGTGCTGACCGGAAGTGATGACGGTCGCCACAGCAACACGTCTCTGGCGTGGGGAGCTGGCGCGCAGTTTAACCCGACCGAATCCGTg < 2:333560/136‑1 (MQ=255) ctcATATCAGGAACTTGTTCGCACCTTCCCAAGGGGAAAACGCACGACGTGCTGACCGGAAGTGATGACGGTCGCCACAGCAACACGTCTCTGGCGTGGGGAGCTGGCGCGCAGTTTAACCCGACCGAATCCGTGGCCa > 2:637480/1‑139 (MQ=255) gAACTTGTTCGCACCTTCCCAAGGGGAAAACGCACGACGTGCTGACCGGAAGTGATGACGGTCGCCACAGCAACACGTCTCTGGCGTGGGGAGCTGGCGCGCAGTTTAACCCGACCGAATCCGTGGCCATTGATATTGc > 2:469895/1‑139 (MQ=255) cTTGTTCGCACCTTCCCAAGGGGAAAACGCACGACGTGCTGACCGGAAGTGATGACGGTCGCCACAGCAACACGTCTCTGGCGTGGGGAGCTGGCGCGCAGTTTAACCCGACCGAATCCGTGGCCATTGATATTGCTTa > 2:649848/1‑139 (MQ=255) tGTTCGCACCTTCCCAAGGGGAAAACGCACGACGTGCTGACCGGAAGTGATGACGGTCGCCACAGCAACACGTCTCTGGCGTGGGGAGCTGGCGCGCAGTTTAACCCGACCGAATCCGTGGCCATTGATATTGCTTATg > 2:583261/1‑139 (MQ=255) cccAAGGGGAAAACGCACGACGTGCTGACCGGAAGTGATGACGGTCGCCACAGCAACACGTCTCTGGCGTGGGGAGCTGGCGCGCAGTTTAACCCGACCGAATCCGTGGCCa > 1:547699/1‑112 (MQ=255) cccAAGGGGAAAACGCACGACGTGCTGACCGGAAGTGATGACGGTCGCCACAGCAACACGTCTCTGGCGTGGGGAGCTGGCGCGCAGTTTAACCCGACCGAATCCGTGGCCa < 2:547699/112‑1 (MQ=255) gAAAACGCACGACGTGCTGACCGGAAGTGATGACGGTCGCCACAGCAACACGTCTCTGGCGTGGGGAGCTGGCGCGCAGTTTAACCCGACCGAATCCGTGGCCATTGATATTGCTTATGAAGGCCCCGGCAGTGGCGAc < 1:60420/139‑1 (MQ=255) aaaaCGCACGACGTGCTGACCGGAAGTGATGACGGTCGCCACAGCAACACGTCTCTGGCGTGGGGAGCTGGCGCGCAGTTTAACCCGACCGAATCCGTGGCCATTGATATTGCTTATGAAGGCCCCGGCAGTGGCGACt > 1:228734/1‑139 (MQ=255) acgTGCTGACCGGAAGTGATGACGGTCGCCACAGCAACACGTCTCTGGCGTGGGGAGCTGGCGCGCATTTTAACCCGACCGAATCCGTGGCCATTGATATTGCTTATGAAGGCCCCGGCAGTGGCGACTGGCGCACTGa < 2:228734/139‑1 (MQ=255) aaGTGATGACGGTCGCCACAGCAACACGTCTCTGGCGTGGGGAGCTGGCGTGCAGTTTAACCCGACCGAATCCGTGGCCATTGATATTg > 2:420068/1‑89 (MQ=255) aaGTGATGACGGTCGCCACAGCAACACGTCTCTGGCGTGGGGAGCTGGCGTGCAGTTTAACCCGACCGAATCCGTGGCCATTGATATTg < 1:420068/89‑1 (MQ=255) atgaCGGTCGCCACAGCAACACGTCTCTGGCGTGGGGAGCTGGCGCGCAGTTTAACCCGACCGAATCCGTGGCCATTGATATTGCTTATGAAGGCCCCGGCAGTGGCGACTGGCGCACTGACGGTTTCATCGTGGgtgt < 1:208739/139‑1 (MQ=255) gaCGGTCGCCACAGCAACACGTCTCTGGCGTGGGGAGCTGGCGCGCAGTTTAACCCGACCGAATCCGTGGCCATTGATATTGCTTATGAAGGCCCCGGCAGTGGCGACTGGCGCACTGACGGTTTCATCGTGGGTGTCg < 1:649848/139‑1 (MQ=255) aaCACGTCTCTGGCGTGGGGAGCTGGCGCGCAGTTTAACCCGACCGAATCCGTGGCCATTGATATTGCTTATGAAGGCCCCGGCAGTGGCGACTGGCGCACTGACGGTTTCATCGTGGGTGTCGGTTATAAGTTCTGAt > 1:162482/1‑139 (MQ=255) acGTCTCTGGCGTGGGGAGCTGGCGCGCAGTTTAACCCGACCGAATCCGTGGCCATTGATATTGCTTATGAAGGCCCCGGCAGTGGCGACTGGCGCACTGACGGTTTCATCGTGGGTGTCGGTTATAAGTTCTGATTAg < 2:277970/139‑1 (MQ=255) acGTCTCTGGCGTGGGGAGCTGGCGCGCAGTTTAACCCGACCGAATCCGTGGCCATTGATATTGCTTATGAAGGCCCCGGCAGTGGCGACTGGCGCACTGACGGTTTCATCGTGGGTGTCGGTTATAAGTTCTGATTAg > 2:143164/1‑139 (MQ=255) cGTCTCTGGCGTGGGGAGCTGGCGCGCAGTTTAACCCGACCGAATCCGTGGCCATTGATATTGCTTATGAAGGCCCCGGCAGTGGCGACTGGCGCACTGACGGTTTCATCGTGGGTGTCGGTTATAAGTTCTGATTAGc > 2:47335/1‑139 (MQ=255) tctGGCGTGGGGAGCTGGCGCGCAGTTTAACCCGACCGAATCCGTGGCCATTGATATTGCTTATGAAGGCCCCGGCAGTGGCGACTGGCGCACTGACGGTTTCATCGTGGGTGTCGGTTATAAGTTCTTATTAGCCAgg < 1:539345/139‑1 (MQ=255) gCGTGGGGAGCTGGCGCGCAGTTTAACCCGACCGAATCCGTGGCCATTGATATTGCTTATGAAGGCCCCGGCAGTGGCGACTGGCGCACTGACGGTTTCATCGTGGGTGTCGGTTATAAGTTCTGATTAGCCAGGTAac > 1:606807/1‑139 (MQ=255) gTGGGGAGCTGGCGCGCAGTTTAACCCGACCGAATCCGTGGCCATTGATATTGCTTATGAAGGCCCCGGCAGTGGCGACTGGCGCACTGACGGTTTCATCGTGGGTGTCGGTTATAAGTTCTGATTAGCCAGGTAacac < 2:606807/139‑1 (MQ=255) tGGGGAGCTGGCGCGCAGTTTAACCCGACCGAATCCGTGGCCATTGATATTGCTTATGAAGGCCCCGGCAGTGGCGACTGGCGCACTGa < 2:272163/89‑1 (MQ=255) tGGGGAGCTGGCGCGCAGTTTAACCCGACCGAATCCGTGGCCATTGATATTGCTTATGAAGGCCCCGGCAGTGGCGACTGGCGCACTGa > 1:272163/1‑89 (MQ=255) gggAGCTGGCGCGCAGTTTAACCCGACCGAATCCGTg < 2:308971/37‑1 (MQ=255) gggAGCTGGCGCGCAGTTTAACCCGACCGAATCCGTg > 1:308971/1‑37 (MQ=255) | GGATGCGCTCCGGATGAATATGATGATCTCATATCAGGAACTTGTTCGCACCTTCCCAAGGGGAAAACGCACGACGTGCTGACCGGAAGTGATGACGGTCGCCACAGCAACACGTCTCTGGCGTGGGGAGCTGGCGTGCAGTTTAACCCGACCGAATCCGTGGCCATTGATATTGCTTATGAAGGCCCCGGCAGTGGCGACTGGCGCACTGACGGTTTCATCGTGGGTGTCGGTTATAAGTTCTGATTAGCCAGGTAACAC > NC_000913/1428739‑1428999 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |