mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.27.1 revision 87c22d663cc3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 757 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 3,850,007 | 0 | G | A | 50.5% | 79.5 / 163.7 | 107 | P44S (CCG→TCG) | uhpB | sensory histidine kinase in two‑component regulatory sytem with UhpA |
| * | NC_000913 | 501,575 | 0 | A | C | 48.5% | 225.9 / 23.7 | 132 | V555G (GTG→GGG) | ybaL | inner membrane putative NAD(P)‑binding transporter |
| * | NC_000913 | 29,496 | 0 | T | A | 46.3% | 135.5 / 85.1 | 134 | intergenic (+301/‑155) | dapB/carA | dihydrodipicolinate reductase/carbamoyl phosphate synthetase small subunit, glutamine amidotransferase |
| * | NC_000913 | 2,603,342 | 0 | A | C | 45.3% | 133.8 / 113.4 | 117 | T509P (ACC→CCC) | hyfB | hydrogenase 4, membrane subunit |
| * | NC_000913 | 29,486 | 0 | C | A | 44.9% | 185.6 / 76.6 | 136 | intergenic (+291/‑165) | dapB/carA | dihydrodipicolinate reductase/carbamoyl phosphate synthetase small subunit, glutamine amidotransferase |
| * | NC_000913 | 2,434,882 | 0 | T | G | 44.6% | 189.4 / 30.7 | 121 | Y252S (TAC→TCC) | truA | tRNA pseudouridine(38‑40) synthase |
| * | NC_000913 | 3,926,210 | 0 | T | G | 44.0% | 111.8 / 315.4 | 200 | A82A (GCA→GCC) | mioC | FMN‑binding protein MioC |
| * | NC_000913 | 298,960 | 0 | A | C | 43.9% | 192.1 / 47.4 | 131 | Y659D (TAT→GAT) | paoC | PaoABC aldehyde oxidoreductase, Moco‑containing subunit |
| * | NC_000913 | 213,341 | 0 | A | G | 43.8% | 125.1 / 32.4 | 90 | G337G (GGA→GGG) | tilS | tRNA(Ile)‑lysidine synthetase |
| * | NC_000913 | 357,890 | 0 | C | A | 43.8% | 125.9 / 56.7 | 105 | L267F (TTG→TTT) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 1,982,523 | 0 | A | G | 43.8% | 222.6 / 43.6 | 137 | intergenic (‑136/+31) | otsB/araH | trehalose‑6‑phosphate phosphatase, biosynthetic/L‑arabinose ABC transporter permease |
| * | NC_000913 | 4,538,109 | 0 | A | C | 43.7% | 201.3 / 36.7 | 119 | G219G (GGT→GGG) | nanM | N‑acetylneuraminic acid mutarotase |
| * | NC_000913 | 2,386,862 | 0 | G | A | 43.5% | 135.0 / 112.1 | 138 | intergenic (+31/‑72) | yfbL/yfbM | putative M28A family peptidase/DUF1877 family protein |
| * | NC_000913 | 3,705,661 | 0 | T | C | 43.5% | 215.4 / 42.6 | 138 | I44V (ATC→GTC) | dppB | dipeptide/heme ABC transporter permease |
| * | NC_000913 | 1,622,816 | 0 | G | A | 43.3% | 110.3 / 132.3 | 134 | intergenic (+75/+144) | yneM/dgcZ | inner membrane‑associated protein/diguanylate cyclase, zinc‑sensing |
| * | NC_000913 | 501,564 | 0 | A | C | 43.1% | 267.2 / 18.8 | 138 | *559E (TAA→GAA) | ybaL | inner membrane putative NAD(P)‑binding transporter |
| * | NC_000913 | 1,004,625 | 0 | T | G | 42.4% | 220.4 / 20.1 | 125 | L227V (TTG→GTG) | ycbF | putative periplasmic pilin chaperone |
| * | NC_000913 | 4,332,791 | 0 | A | C | 42.0% | 217.6 / 24.0 | 112 | V161G (GTG→GGG) | basS | sensory histidine kinase in two‑component regulatory system with BasR |
| * | NC_000913 | 357,880 | 0 | T | C | 41.8% | 153.3 / 30.8 | 103 | K271E (AAA→GAA) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 366,526 | 0 | T | G | 41.6% | 230.9 / 21.4 | 114 | T329P (ACC→CCC) | lacI | lactose‑inducible lac operon transcriptional repressor |
| Marginal new junction evidence (lowest skew 10 of 50 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 925901 = | 129 (0.990) | 42 (0.330) +C |
29/296 | 7.2 | 27.1% | noncoding (71/88 nt) | serW | tRNA‑Ser |
| ? | NC_000913 | = 1097399 | 99 (0.760) | intergenic (+570/+166) | ycdU/serX | putative inner membrane protein/tRNA‑Ser | |||||
| * | ? | NC_000913 | = 3950349 | 117 (0.900) | 29 (0.230) | 25/286 | 8.0 | 22.8% | coding (28/99 nt) | ilvL | ilvG operon leader peptide |
| ? | NC_000913 | 3952022 = | 84 (0.680) | pseudogene (481/663 nt) | ilvG | pseudogene, acetolactate synthase 2 large subunit, valine‑insensitive; acetolactate synthase II, large subunit, cryptic, interrupted | |||||
| * | ? | NC_000913 | 1411899 = | 116 (0.890) | 7 (0.070) | 7/246 | 13.9 | 6.5% | coding (50/936 nt) | ttcA | tRNA s(2)C32 thioltransferase, iron sulfur cluster protein |
| ? | NC_000913 | = 1434958 | 105 (0.980) | pseudogene (51/51 nt) | ttcC | pseudogene, prophage Rac integration site ttcA duplication;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 925901 = | 129 (0.990) | 21 (0.160) +C |
8/296 | 15.2 | 19.3% | noncoding (71/88 nt) | serW | tRNA‑Ser |
| ? | NC_000913 | = 1097218 | 48 (0.370) | intergenic (+389/+347) | ycdU/serX | putative inner membrane protein/tRNA‑Ser | |||||
| * | ? | NC_000913 | 381258 = | NA (NA) | 20 (0.160) | 8/296 | 15.2 | NA | pseudogene (3/417 nt) | yaiX | pseudogene, interrupted by IS2A; hexapeptide transferase superfamily; putative transferase |
| ? | NC_000913 | = 382589 | NA (NA) | noncoding (1330/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 4498181 = | NA (NA) | 19 (0.150) | 8/298 | 15.3 | NA | noncoding (1/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 4499512 | NA (NA) | intergenic (+12/+81) | insD1/yjgX | IS2 transposase TnpB/pseudogene fragment | |||||
| * | ? | NC_000913 | 2882234 = | 168 (1.300) | 5 (0.040) | 5/262 | 15.9 | 3.3% | coding (404/483 nt) | casB | CRISP RNA (crRNA) containing Cascade antiviral complex protein |
| ? | NC_000913 | 2882252 = | 145 (1.270) | coding (386/483 nt) | casB | CRISP RNA (crRNA) containing Cascade antiviral complex protein | |||||
| * | ? | NC_000913 | = 2518231 | 137 (1.060) | 4 (0.040) +23 bp |
4/252 | 16.3 | 3.3% | noncoding (1/76 nt) | alaW | tRNA‑Ala |
| ? | NC_000913 | = 3427077 | NA (NA) | noncoding (76/77 nt) | ileU | tRNA‑Ile | |||||
| * | ? | NC_000913 | 225456 = | 12 (0.090) | 4 (0.040) +23 bp |
4/252 | 16.3 | 6.0% | noncoding (76/77 nt) | ileV | tRNA‑Ile |
| ? | NC_000913 | = 2518231 | 137 (1.060) | noncoding (1/76 nt) | alaW | tRNA‑Ala | |||||
| * | ? | NC_000913 | = 2518117 | 145 (1.120) | 4 (0.040) +22 bp |
4/254 | 16.4 | 3.1% | intergenic (‑1/+39) | alaX/alaW | tRNA‑Ala/tRNA‑Ala |
| ? | NC_000913 | = 3427077 | NA (NA) | noncoding (76/77 nt) | ileU | tRNA‑Ile | |||||