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 | 47.6% | 50.1 / 71.8 | 84 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 4,568,504 | 0 | T | G | 34.3% | 172.0 / 23.4 | 105 | T6P (ACC→CCC) | mdtM | multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| * | NC_000913 | 29,496 | 0 | T | A | 33.3% | 101.0 / 35.9 | 60 | intergenic (+301/‑155) | dapB/carA | 4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha |
| * | NC_000913 | 1,825,061 | 0 | G | A | 33.3% | 53.5 / 16.0 | 36 | intergenic (‑124/+79) | ves/spy | HutD family protein Ves/ATP‑independent periplasmic chaperone |
| * | NC_000913 | 650,809 | 0 | T | G | 32.3% | 117.5 / 21.6 | 62 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 3,206,435 | 0 | C | T | 30.6% | 71.1 / 25.4 | 49 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 742,106 | 0 | A | C | 26.4% | 117.9 / 14.3 | 53 | S151A (TCT→GCT) | dtpD | dipeptide:H(+) symporter DtpD |
| * | NC_000913 | 4,111,747 | 0 | G | T | 26.4% | 128.5 / 24.4 | 53 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 2,326,450 | 0 | T | G | 26.2% | 127.8 / 33.6 | 61 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 501,564 | 0 | A | C | 23.6% | 129.9 / 20.6 | 55 | *559E (TAA→GAA) | ybaL | putative transporter YbaL |
| * | NC_000913 | 1,933,412 | 0 | G | C | 23.1% | 125.7 / 12.2 | 52 | A398G (GCG→GGG) | edd | phosphogluconate dehydratase |
| * | NC_000913 | 3,624,845 | 0 | A | T | 23.1% | 55.6 / 13.6 | 26 | P156P (CCA→CCT) | yhhI | putative transposase |
| * | NC_000913 | 1,315,936 | 0 | T | A | 22.9% | 146.6 / 12.9 | 61 | K34* (AAA→TAA) | yciG | protein YciG |
| * | NC_000913 | 3,844,219 | 0 | T | G | 22.5% | 204.3 / 13.7 | 80 | F86V (TTT→GTT) | adeD | adenine deaminase |
| * | NC_000913 | 4,296,060 | 0 | C | T | 22.1% | 207.3 / 49.7 | 95 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 3,003,480 | 0 | A | G | 21.1% | 145.3 / 18.7 | 71 | G289G (GGA→GGG) | xdhB | putative xanthine dehydrogenase FAD‑binding subunit XdhB |
| * | NC_000913 | 2,509,880 | 0 | A | C | 20.8% | 182.8 / 10.8 | 72 | D84A (GAC→GCC) | yfeO | putative transport protein YfeO |
| * | NC_000913 | 3,350,853 | 0 | A | C | 20.0% | 156.7 / 12.7 | 60 | S725A (TCA→GCA) | arcB | sensory histidine kinase ArcB |
| * | NC_000913 | 3,404,215 | 0 | T | G | 20.0% | 141.6 / 12.9 | 55 | G244G (GGT→GGG) | yhdH | acrylyl‑CoA reductase |
| Marginal new junction evidence (lowest skew 10 of 37 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 375102 = | NA (NA) | 19 (0.280) | 11/216 | 3.6 | NA | noncoding (17/36 nt) | other | REP31d |
| ? | NC_000913 | 377351 = | NA (NA) | noncoding (16/37 nt) | other | REP32a | |||||
| * | ? | NC_000913 | 608007 = | NA (NA) | 8 (0.110) | 8/224 | 4.6 | 7.2% | noncoding (1/1345 nt) | IS186 | repeat region |
| ? | NC_000913 | 609352 = | 103 (1.460) | intergenic (+175/+107) | insL‑2/entD | IS186/IS421 transposase/phosphopantetheinyl transferase EntD | |||||
| * | ? | NC_000913 | = 4373285 | NA (NA) | 8 (0.110) | 8/226 | 4.7 | NA | noncoding (12/34 nt) | other | REP328b |
| ? | NC_000913 | = 4374507 | NA (NA) | noncoding (9/34 nt) | other | REP329a | |||||
| * | ? | NC_000913 | 4373261 = | NA (NA) | 25 (0.350) | 8/226 | 4.7 | NA | intergenic (+99/+104) | yjeI/yjeJ | DUF4156 domain‑containing lipoprotein YjeI/protein YjeJ |
| ? | NC_000913 | 4374533 = | NA (NA) | intergenic (‑299/+96) | yjeJ/epmB | protein YjeJ/lysine 2,3‑aminomutase | |||||
| * | ? | NC_000913 | = 375064 | NA (NA) | 10 (0.170) | 6/192 | 4.7 | 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 | 375124 = | NA (NA) | 11 (0.180) | 5/192 | 5.2 | 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 | 339959 = | NA (NA) | 6 (0.090) +28 bp |
6/220 | 5.3 | NA | coding (167/297 nt) | yahH | putative uncharacterized protein YahH |
| ? | NC_000913 | 377433 = | NA (NA) | intergenic (+122/+102) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | = 375160 | NA (NA) | 12 (0.140) +T |
8/274 | 5.5 | NA | noncoding (28/34 nt) | other | REP31e |
| ? | NC_000913 | = 377491 | NA (NA) | noncoding (32/34 nt) | other | REP32d | |||||
| * | ? | NC_000913 | = 4542690 | 66 (0.760) | 7 (0.090) | 7/258 | 5.6 | 10.5% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 58 (0.710) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 608006 | 96 (1.360) | 5 (0.070) | 5/224 | 5.8 | 5.0% | intergenic (+18/‑59) | hokE/insL‑2 | protein HokE/IS186/IS421 transposase |
| ? | NC_000913 | = 609351 | NA (NA) | noncoding (1345/1345 nt) | IS186 | repeat region | |||||