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 (highest frequency 20 of 23 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 3,206,435 | 0 | C | T | 42.9% | 21.5 / 28.9 | 35 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 4,604,344 | 0 | C | T | 40.8% | 44.0 / 36.7 | 49 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 3,206,444 | 0 | T | A | 33.3% | 41.1 / 13.2 | 36 | intergenic (‑188/‑19) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 2,326,450 | 0 | T | G | 31.8% | 97.4 / 43.9 | 63 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 4,296,060 | 0 | C | T | 29.9% | 174.5 / 83.6 | 107 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 650,809 | 0 | T | G | 29.6% | 101.1 / 16.2 | 54 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 4,101,514 | 0 | G | T | 29.2% | 112.3 / 24.4 | 48 | intergenic (+84/‑176) | sodA/kdgT | superoxide dismutase (Mn)/2‑dehydro‑3‑deoxy‑D‑gluconate:H(+) symporter |
| * | NC_000913 | 1,621,118 | 0 | A | C | 28.9% | 72.2 / 12.2 | 38 | V7G (GTG→GGG) | eamA | cysteine/O‑acetylserine exporter EamA |
| * | NC_000913 | 888,014 | 0 | T | G | 28.3% | 104.9 / 10.6 | 53 | noncoding (44/81 nt) | rybB | small regulatory RNA RybB |
| * | NC_000913 | 753,125 | 0 | T | A | 28.2% | 79.6 / 12.5 | 39 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 29,496 | 0 | T | A | 26.5% | 105.9 / 18.9 | 49 | intergenic (+301/‑155) | dapB/carA | 4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha |
| * | NC_000913 | 4,223,593 | 0 | T | G | 26.5% | 148.9 / 13.4 | 68 | K12N (AAA→AAC) | iclR | DNA‑binding transcriptional repressor IclR |
| * | NC_000913 | 1,427,749 | 0 | C | G | 25.8% | 222.4 / 86.3 | 97 | Q326H (CAG→CAC) | insH‑5 | Rac prophage; IS5 transposase and trans‑activator |
| * | NC_000913 | 3,240,985 | 0 | T | G | 25.0% | 97.2 / 11.6 | 44 | S348A (TCT→GCT) | sstT | serine/threonine:Na(+) symporter |
| * | NC_000913 | 1,622,816 | 0 | G | A | 24.2% | 63.1 / 13.3 | 33 | intergenic (+75/+1) | mgtS/mgrR | small protein MgtS/small regulatory RNA MgrR |
| * | NC_000913 | 501,564 | 0 | A | C | 23.7% | 79.8 / 15.8 | 38 | *559E (TAA→GAA) | ybaL | putative transporter YbaL |
| * | NC_000913 | 372,640 | 0 | T | G | 23.2% | 124.1 / 10.5 | 56 | L176V (TTA→GTA) | mhpD | 2‑hydroxypentadienoate hydratase |
| * | NC_000913 | 1,428,700 | 0 | A | G | 22.9% | 206.7 / 62.2 | 105 | D9D (GAT→GAC) | insH‑5 | Rac prophage; IS5 transposase and trans‑activator |
| * | NC_000913 | 445,558 | 0 | A | C | 22.5% | 88.0 / 11.5 | 40 | V370G (GTA→GGA) | yajR | putative major facilitator superfamily transport protein YajR |
| * | NC_000913 | 1,068,173 | 0 | T | G | 21.7% | 141.3 / 12.7 | 60 | G31G (GGT→GGG) | ymdF | conserved protein YmdF |
| Marginal new junction evidence (lowest skew 10 of 24 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 375023 = | NA (NA) | 10 (0.170) | 10/192 | 3.4 | NA | intergenic (+142/‑436) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377530 = | NA (NA) | intergenic (+219/+5) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | = 375064 | NA (NA) | 13 (0.230) | 8/192 | 4.0 | NA | noncoding (33/34 nt) | other | REP31c |
| ? | NC_000913 | = 377487 | NA (NA) | intergenic (+176/+48) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | = 375160 | NA (NA) | 23 (0.280) +T |
12/274 | 4.3 | NA | noncoding (28/34 nt) | other | REP31e |
| ? | NC_000913 | = 377491 | NA (NA) | noncoding (32/34 nt) | other | REP32d | |||||
| * | ? | NC_000913 | = 375059 | NA (NA) | 17 (0.210) +T |
10/274 | 4.8 | NA | noncoding (28/34 nt) | other | REP31c |
| ? | NC_000913 | = 377491 | NA (NA) | noncoding (32/34 nt) | other | REP32d | |||||
| * | ? | NC_000913 | 375001 = | NA (NA) | 12 (0.190) | 7/216 | 4.8 | NA | noncoding (17/36 nt) | other | REP31b |
| ? | NC_000913 | 377351 = | NA (NA) | noncoding (16/37 nt) | other | REP32a | |||||
| * | ? | NC_000913 | 374922 = | NA (NA) | 16 (0.270) | 6/202 | 4.9 | NA | intergenic (+41/‑537) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377430 = | NA (NA) | intergenic (+119/+105) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | 608007 = | NA (NA) | 19 (0.280) | 7/224 | 5.0 | 24.4% | noncoding (1/1345 nt) | IS186 | repeat region |
| ? | NC_000913 | 609352 = | 59 (0.880) | intergenic (+175/+107) | insL‑2/entD | IS186/IS421 transposase/phosphopantetheinyl transferase EntD | |||||
| * | ? | NC_000913 | 375248 = | NA (NA) | 6 (0.080) | 6/238 | 5.6 | NA | noncoding (15/34 nt) | other | REP31g |
| ? | NC_000913 | 377507 = | NA (NA) | noncoding (16/34 nt) | other | REP32d | |||||
| * | ? | NC_000913 | 375124 = | NA (NA) | 4 (0.070) | 4/192 | 5.6 | NA | intergenic (+243/‑335) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377530 = | NA (NA) | intergenic (+219/+5) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | = 4373296 | NA (NA) | 6 (0.080) | 6/256 | 5.9 | NA | noncoding (1/34 nt) | other | REP328b |
| ? | NC_000913 | = 4374496 | NA (NA) | intergenic (‑262/+133) | yjeJ/epmB | protein YjeJ/lysine 2,3‑aminomutase | |||||