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 | 36.0% | 105.7 / 37.6 | 75 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 2,001,918 | 0 | A | C | 33.9% | 100.8 / 25.3 | 59 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 4,296,060 | 0 | C | T | 29.3% | 157.8 / 69.5 | 92 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 445,558 | 0 | A | C | 29.2% | 83.5 / 17.7 | 48 | V370G (GTA→GGA) | yajR | putative major facilitator superfamily transport protein YajR |
| * | NC_000913 | 4,429,984 | 0 | T | G | 27.8% | 151.8 / 23.3 | 72 | L41V (TTG→GTG) | cycA | serine/alanine/glycine/cycloserine:H(+)symporter |
| * | NC_000913 | 372,640 | 0 | T | G | 26.8% | 116.9 / 12.6 | 56 | L176V (TTA→GTA) | mhpD | 2‑hydroxypentadienoate hydratase |
| * | NC_000913 | 3,206,435 | 0 | C | T | 25.0% | 97.0 / 20.1 | 48 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 4,111,747 | 0 | G | T | 23.7% | 109.1 / 11.8 | 38 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 3,206,444 | 0 | T | A | 21.6% | 120.5 / 10.3 | 51 | intergenic (‑188/‑19) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 3,404,215 | 0 | T | G | 21.0% | 148.3 / 13.9 | 62 | G244G (GGT→GGG) | yhdH | acrylyl‑CoA reductase |
| Marginal new junction evidence (lowest skew 10 of 13 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 4542690 | 73 (0.790) | 10 (0.120) | 9/260 | 5.3 | 11.3% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 89 (1.030) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 4542682 = | 73 (0.790) | 10 (0.120) | 9/260 | 5.3 | 11.2% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 90 (1.040) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 1978494 | 0 (0.000) | 9 (0.100) | 5/278 | 7.1 | 100% | intergenic (‑297/+24) | flhD/insB‑5 | DNA‑binding transcriptional dual regulator FlhD/IS1 protein InsB |
| ? | NC_000913 | = 2290113 | NA (NA) | noncoding (1/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 1613256 | 67 (0.730) | 4 (0.040) | 4/274 | 7.5 | 5.8% | intergenic (‑5/+59) | glsB/sad | glutaminase 2/NAD(+)‑dependent succinate semialdehyde dehydrogenase |
| ? | NC_000913 | 1613260 = | 63 (0.690) | intergenic (‑9/+55) | glsB/sad | glutaminase 2/NAD(+)‑dependent succinate semialdehyde dehydrogenase | |||||
| * | ? | NC_000913 | = 1822225 | 68 (0.740) | 3 (0.040) | 3/258 | 7.8 | 3.7% | coding (32/339 nt) | osmE | osmotically‑inducible lipoprotein OsmE |
| ? | NC_000913 | = 1822597 | 94 (1.100) | coding (140/828 nt) | nadE | NAD synthetase, NH3‑dependent | |||||
| * | ? | NC_000913 | 2728258 = | NA (NA) | 3 (0.030) | 3/264 | 7.9 | NA | noncoding (927/2904 nt) | rrlG | 23S ribosomal RNA |
| ? | NC_000913 | 2728336 = | NA (NA) | noncoding (849/2904 nt) | rrlG | 23S ribosomal RNA | |||||
| * | ? | NC_000913 | 2487015 = | 101 (1.090) | 3 (0.030) | 3/260 | 7.9 | 3.1% | coding (2642/3594 nt) | evgS | sensory histidine kinase EvgS |
| ? | NC_000913 | = 2487011 | 91 (1.050) | coding (2638/3594 nt) | evgS | sensory histidine kinase EvgS | |||||
| * | ? | NC_000913 | = 2013238 | 53 (0.590) | 2 (0.020) +CTG |
3/264 | 7.9 | 3.6% | coding (10/1659 nt) | fliF | flagellar basal‑body MS‑ring and collar protein |
| ? | NC_000913 | 2013239 = | 54 (0.580) | coding (11/1659 nt) | fliF | flagellar basal‑body MS‑ring and collar protein | |||||
| * | ? | NC_000913 | = 226685 | 30 (0.320) | 3 (0.030) | 3/264 | 7.9 | 9.5% | noncoding (927/2904 nt) | rrlH | 23S ribosomal RNA |
| ? | NC_000913 | 2728336 = | NA (NA) | noncoding (849/2904 nt) | rrlG | 23S ribosomal RNA | |||||
| * | ? | NC_000913 | = 4492090 | 101 (1.090) | 3 (0.030) | 3/276 | 8.1 | 2.8% | coding (436/1320 nt) | idnT | L‑idonate/5‑ketogluconate/gluconate transporter |
| ? | NC_000913 | = 4492168 | 111 (1.210) | coding (358/1320 nt) | idnT | L‑idonate/5‑ketogluconate/gluconate transporter | |||||