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 | 48.3% | 11.2 / 22.7 | 29 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 29,496 | 0 | T | A | 34.3% | 57.4 / 16.6 | 35 | intergenic (+301/‑155) | dapB/carA | 4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha |
| * | NC_000913 | 3,401,459 | 0 | T | C | 34.3% | 44.8 / 11.5 | 35 | D625G (GAT→GGT) | csrD | regulator of CsrB and CsrC decay |
| * | NC_000913 | 4,111,747 | 0 | G | T | 33.3% | 48.8 / 15.7 | 27 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 1,491,098 | 0 | A | C | 24.5% | 113.6 / 10.2 | 53 | Y66S (TAC→TCC) | cybB | cytochrome b561 |
| * | NC_000913 | 2,326,450 | 0 | T | G | 24.5% | 108.7 / 20.0 | 49 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 375,176 | 0 | A | G | 20.0% | 114.7 / 27.5 | 60 | intergenic (+295/‑283) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 51 (1.020) | 6 (0.140) | 6/244 | 3.6 | 12.1% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 42 (0.950) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 375064 | NA (NA) | 5 (0.140) | 4/192 | 3.6 | 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 | = 4542690 | 42 (0.840) | 6 (0.130) | 6/258 | 3.7 | 11.5% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 53 (1.130) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 375023 = | NA (NA) | 4 (0.120) | 3/192 | 4.0 | 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 | 315401 = | NA (NA) | 4 (0.090) | 4/250 | 4.4 | NA | noncoding (173/1255 nt) | IS3 | repeat region |
| ? | NC_000913 | 315627 = | NA (NA) | noncoding (399/1255 nt) | IS3 | repeat region | |||||
| * | ? | NC_000913 | 608007 = | NA (NA) | 4 (0.100) | 3/224 | 4.5 | 9.3% | noncoding (1/1345 nt) | IS186 | repeat region |
| ? | NC_000913 | 609352 = | 39 (0.960) | intergenic (+175/+107) | insL‑2/entD | IS186/IS421 transposase/phosphopantetheinyl transferase EntD | |||||
| * | ? | NC_000913 | 375248 = | NA (NA) | 4 (0.090) | 3/238 | 4.7 | NA | noncoding (15/34 nt) | other | REP31g |
| ? | NC_000913 | 377507 = | NA (NA) | noncoding (16/34 nt) | other | REP32d | |||||
| * | ? | NC_000913 | = 2213244 | 54 (1.080) | 3 (0.060) | 3/256 | 4.9 | 6.4% | coding (1401/1686 nt) | btsS | high‑affinity pyruvate receptor |
| ? | NC_000913 | = 2213296 | 38 (0.820) | coding (1349/1686 nt) | btsS | high‑affinity pyruvate receptor | |||||
| * | ? | NC_000913 | 381681 = | NA (NA) | 5 (0.110) | 3/258 | 4.9 | NA | noncoding (422/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 381753 = | NA (NA) | noncoding (494/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 228061 = | NA (NA) | 3 (0.060) | 3/274 | 5.1 | NA | noncoding (2303/2904 nt) | rrlH | 23S ribosomal RNA |
| ? | NC_000913 | = 228293 | NA (NA) | noncoding (2535/2904 nt) | rrlH | 23S ribosomal RNA | |||||