mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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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 | 526,792 | 0 | A | C | 28.6% | 143.8 / 48.1 | 84 | S1178R (AGC→CGC) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_pae_pgi | 4,295,320 | 0 | C | T | 28.2% | 133.5 / 59.4 | 103 | 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 | 27.7% | 173.8 / 64.6 | 83 | A1179G (GCG→GGG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_pae_pgi | 526,800 | 0 | A | G | 26.8% | 154.7 / 43.8 | 82 | 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 213 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_pae_pgi | = 1552105 | 59 (0.960) | 10 (0.180) | 8/256 | 6.0 | 14.3% | noncoding (35/97 nt) | RIP120 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP120 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913_3_pae_pgi | 3676223 = | 66 (1.170) | noncoding (103/161 nt) | RIP264 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | RIP264 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913_3_pae_pgi | = 2133461 | NA (NA) | 9 (0.150) | 7/266 | 6.6 | 11.4% | noncoding (30/34 nt) | REP145 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP145 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913_3_pae_pgi | 3676218 = | 70 (1.200) | noncoding (98/161 nt) | RIP264 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | RIP264 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913_3_pae_pgi | 411135 = | 74 (1.200) | 9 (0.150) | 7/266 | 6.6 | 11.4% | noncoding (58/191 nt) | REP35 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP35 (repetitive extragenic palindromic) element; contains 4 REP sequences |
| ? | NC_000913_3_pae_pgi | 3676218 = | 70 (1.200) | noncoding (98/161 nt) | RIP264 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | RIP264 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913_3_pae_pgi | = 375060 | 105 (1.710) | 9 (0.150) | 7/266 | 6.6 | 9.6% | noncoding (131/436 nt) | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP31 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | NC_000913_3_pae_pgi | 3676218 = | 70 (1.200) | noncoding (98/161 nt) | RIP264 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | RIP264 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913_3_pae_pgi | 411241 = | 82 (1.330) | 9 (0.150) | 7/270 | 6.7 | 10.7% | noncoding (164/191 nt) | REP35 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP35 (repetitive extragenic palindromic) element; contains 4 REP sequences |
| ? | NC_000913_3_pae_pgi | 3676216 = | 71 (1.200) | noncoding (96/161 nt) | RIP264 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | RIP264 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913_3_pae_pgi | = 1552283 | 80 (1.300) | 8 (0.140) | 6/256 | 6.9 | 10.3% | noncoding (35/97 nt) | RIP121 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP121 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913_3_pae_pgi | 3676223 = | 66 (1.170) | noncoding (103/161 nt) | RIP264 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | RIP264 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913_3_pae_pgi | = 2673807 | NA (NA) | 8 (0.140) | 6/262 | 7.0 | 10.8% | noncoding (32/34 nt) | REP185 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP185 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913_3_pae_pgi | 3676220 = | 66 (1.150) | noncoding (100/161 nt) | RIP264 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | RIP264 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913_3_pae_pgi | 2460605 = | 62 (1.010) | 7 (0.120) | 6/262 | 7.0 | 10.8% | intergenic (‑136/+45) | fadI/yfcZ | beta‑ketoacyl‑CoA thiolase, anaerobic, subunit/UPF0381 family protein |
| ? | NC_000913_3_pae_pgi | 2460634 = | 57 (0.990) | intergenic (‑165/+16) | fadI/yfcZ | beta‑ketoacyl‑CoA thiolase, anaerobic, subunit/UPF0381 family protein | |||||
| * | ? | NC_000913_3_pae_pgi | 3676218 = | 70 (1.200) | 8 (0.140) | 6/266 | 7.1 | 10.3% | noncoding (98/161 nt) | RIP264 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | RIP264 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site |
| ? | NC_000913_3_pae_pgi | 4613521 = | NA (NA) | noncoding (5/388 nt) | REP352 (repetitive extragenic palindromic) element; contains 8 REP sequences | REP352 (repetitive extragenic palindromic) element; contains 8 REP sequences | |||||
| * | ? | NC_000913_3_pae_pgi | 3676218 = | 70 (1.200) | 8 (0.140) | 6/266 | 7.1 | 10.3% | noncoding (98/161 nt) | RIP264 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | RIP264 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site |
| ? | NC_000913_3_pae_pgi | 4553769 = | NA (NA) | noncoding (5/34 nt) | REP346 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP346 (repetitive extragenic palindromic) element; contains 1 REP sequences | |||||