mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913_3_pae_pgi | 4,295,320 | 0 | C | T | 34.1% | 94.2 / 64.3 | 91 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913_3_pae_pgi | 526,796 | 0 | C | G | 32.2% | 132.8 / 75.4 | 88 | A1179G (GCG→GGG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_pae_pgi | 526,792 | 0 | A | C | 29.5% | 139.4 / 65.0 | 96 | S1178R (AGC→CGC) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_pae_pgi | 526,800 | 0 | A | G | 27.1% | 146.6 / 45.0 | 85 | E1180E (GAA→GAG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| Marginal new junction evidence (lowest skew 10 of 72 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_pae_pgi | 4541942 = | 50 (0.730) | 12 (0.190) | 11/260 | 6.0 | 21.3% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913_3_pae_pgi | 4542256 = | 42 (0.660) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913_3_pae_pgi | 72136 = | NA (NA) | 9 (0.140) | 9/264 | 6.9 | NA | noncoding (1/85 nt) | REP7 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP7 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913_3_pae_pgi | 72169 = | NA (NA) | noncoding (34/85 nt) | REP7 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP7 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913_3_pae_pgi | 1097372 = | NA (NA) | 9 (0.130) | 9/272 | 7.1 | 14.3% | intergenic (+543/+193) | ycdU/serX | putative inner membrane protein/tRNA‑Ser |
| ? | NC_000913_3_pae_pgi | 1097531 = | 55 (0.810) | intergenic (+702/+34) | ycdU/serX | putative inner membrane protein/tRNA‑Ser | |||||
| * | ? | NC_000913_3_pae_pgi | 1096988 = | 70 (1.030) | 9 (0.130) | 9/272 | 7.1 | 11.6% | intergenic (+159/+577) | ycdU/serX | putative inner membrane protein/tRNA‑Ser |
| ? | NC_000913_3_pae_pgi | 1097191 = | NA (NA) | intergenic (+362/+374) | ycdU/serX | putative inner membrane protein/tRNA‑Ser | |||||
| * | ? | NC_000913_3_pae_pgi | = 2662541 | NA (NA) | 8 (0.120) | 8/264 | 7.4 | NA | noncoding (233/266 nt) | REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences | REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences |
| ? | NC_000913_3_pae_pgi | = 2662574 | NA (NA) | noncoding (266/266 nt) | REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences | REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences | |||||
| * | ? | NC_000913_3_pae_pgi | = 2662483 | 84 (1.230) | 8 (0.120) | 8/264 | 7.4 | 9.1% | noncoding (175/266 nt) | REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences | REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences |
| ? | NC_000913_3_pae_pgi | = 2662541 | NA (NA) | noncoding (233/266 nt) | REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences | REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences | |||||
| * | ? | NC_000913_3_pae_pgi | = 2662392 | 78 (1.140) | 8 (0.120) | 8/264 | 7.4 | 9.7% | noncoding (84/266 nt) | REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences | REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences |
| ? | NC_000913_3_pae_pgi | = 2662541 | NA (NA) | noncoding (233/266 nt) | REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences | REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences | |||||
| * | ? | NC_000913_3_pae_pgi | 72169 = | NA (NA) | 8 (0.120) | 8/264 | 7.4 | NA | noncoding (34/85 nt) | REP7 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP7 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913_3_pae_pgi | 4295095 = | NA (NA) | noncoding (1/600 nt) | RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites | RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites | |||||
| * | ? | NC_000913_3_pae_pgi | 72169 = | NA (NA) | 8 (0.120) | 8/264 | 7.4 | NA | noncoding (34/85 nt) | REP7 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP7 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913_3_pae_pgi | 3296999 = | NA (NA) | noncoding (1/84 nt) | REP240 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP240 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913_3_pae_pgi | 72169 = | NA (NA) | 8 (0.120) | 8/264 | 7.4 | NA | noncoding (34/85 nt) | REP7 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP7 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913_3_pae_pgi | 2340313 = | NA (NA) | noncoding (1/82 nt) | REP163 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP163 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||