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 | 4,604,344 | 0 | C | T | 36.6% | 88.5 / 41.0 | 71 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 2,326,450 | 0 | T | G | 27.8% | 94.3 / 31.4 | 54 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 2,628,625 | 0 | A | C | 27.3% | 60.4 / 10.5 | 33 | V105G (GTC→GGC) | pdeF | cyclic di‑GMP phosphodiesterase PdeF |
| * | NC_000913 | 3,740,909 | 0 | T | G | 27.0% | 118.7 / 14.9 | 63 | V402G (GTG→GGG) | avtA | valine‑‑pyruvate aminotransferase |
| * | NC_000913 | 2,001,918 | 0 | A | C | 26.2% | 79.7 / 13.4 | 42 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 4,111,747 | 0 | G | T | 26.2% | 111.9 / 17.0 | 42 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 3,206,435 | 0 | C | T | 26.1% | 85.2 / 20.5 | 46 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 4,098,155 | 0 | A | C | 21.6% | 225.7 / 18.2 | 98 | L140F (TTA→TTC) | rhaS | DNA‑binding transcriptional activator RhaS |
| * | NC_000913 | 4,161,148 | 0 | G | A | 21.3% | 173.7 / 17.8 | 75 | E28K (GAA→AAA) | fabR | DNA‑binding transcriptional repressor FabR |
| * | NC_000913 | 599,576 | 0 | T | G | 20.0% | 106.2 / 10.9 | 45 | V288G (GTG→GGG) | cusA | copper/silver export system RND permease |
| * | NC_000913 | 1,315,936 | 0 | T | A | 20.0% | 193.7 / 14.3 | 75 | K34* (AAA→TAA) | yciG | protein YciG |
| Marginal new junction evidence (lowest skew 10 of 11 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1207805 | 81 (1.000) | 14 (0.200) | 11/244 | 4.3 | 18.4% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 53 (0.740) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 374922 = | NA (NA) | 14 (0.180) | 7/260 | 6.0 | NA | intergenic (+41/‑537) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377329 = | NA (NA) | intergenic (+18/+206) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | 374922 = | NA (NA) | 4 (0.070) | 4/202 | 6.2 | 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 | 4542682 = | 71 (0.880) | 6 (0.080) | 6/258 | 6.4 | 7.6% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 79 (1.050) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 608007 = | NA (NA) | 5 (0.080) | 3/224 | 7.2 | 7.6% | noncoding (1/1345 nt) | IS186 | repeat region |
| ? | NC_000913 | 609352 = | 61 (0.930) | intergenic (+175/+107) | insL‑2/entD | IS186/IS421 transposase/phosphopantetheinyl transferase EntD | |||||
| * | ? | NC_000913 | 340035 = | NA (NA) | 7 (0.090) | 4/274 | 7.6 | NA | coding (243/297 nt) | yahH | putative uncharacterized protein YahH |
| ? | NC_000913 | 377322 = | NA (NA) | intergenic (+11/+213) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | 3896270 = | 89 (1.100) | 3 (0.040) | 3/270 | 8.1 | 2.8% | coding (340/1338 nt) | adeP | adenine:H(+) symporter |
| ? | NC_000913 | = 3896521 | 121 (1.530) | coding (89/1338 nt) | adeP | adenine:H(+) symporter | |||||
| * | ? | NC_000913 | = 377529 | NA (NA) | 3 (0.040) | 3/268 | 8.1 | NA | intergenic (+218/+6) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB |
| ? | NC_000913 | = 4326342 | NA (NA) | intergenic (‑601/+57) | yjdN/yjdM | conserved protein YjdN/conserved protein YjdM | |||||
| * | ? | NC_000913 | 377321 = | NA (NA) | 4 (0.050) | 3/268 | 8.1 | NA | intergenic (+10/+214) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB |
| ? | NC_000913 | = 508817 | NA (NA) | noncoding (2/34 nt) | other | REP48e | |||||
| * | ? | NC_000913 | = 3538106 | 79 (0.980) | 3 (0.040) | 3/272 | 8.2 | 4.1% | coding (722/2322 nt) | yhgF | putative RNA‑binding protein YhgF |
| ? | NC_000913 | = 3935364 | 61 (0.770) | coding (77/966 nt) | rbsC | ribose ABC transporter membrane subunit | |||||