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% | 54.3 / 68.5 | 89 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 4,568,504 | 0 | T | G | 32.1% | 184.1 / 20.8 | 106 | T6P (ACC→CCC) | mdtM | multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| * | NC_000913 | 4,296,060 | 0 | C | T | 31.1% | 139.6 / 70.3 | 90 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 2,326,450 | 0 | T | G | 28.6% | 124.7 / 37.4 | 70 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 372,640 | 0 | T | G | 26.4% | 95.5 / 14.8 | 53 | L176V (TTA→GTA) | mhpD | 2‑hydroxypentadienoate hydratase |
| * | NC_000913 | 3,745,397 | 0 | A | C | 25.4% | 95.0 / 12.2 | 55 | L198F (TTA→TTC) | yiaN | 2,3‑diketo‑L‑gulonate:Na(+) symporter ‑ membrane subunit |
| * | NC_000913 | 753,125 | 0 | T | A | 25.0% | 151.6 / 18.6 | 64 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 4,111,747 | 0 | G | T | 25.0% | 83.5 / 10.1 | 32 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 650,809 | 0 | T | G | 24.3% | 139.0 / 11.7 | 70 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 646,747 | 0 | T | G | 24.2% | 132.4 / 24.3 | 62 | T255P (ACC→CCC) | citG | triphosphoribosyl‑dephospho‑CoA synthase |
| * | NC_000913 | 1,377,140 | 0 | A | C | 24.0% | 101.8 / 11.6 | 50 | K103N (AAA→AAC) | ycjS | putative oxidoreductase YcjS |
| * | NC_000913 | 2,001,918 | 0 | A | C | 23.8% | 138.9 / 20.2 | 63 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 2,782,509 | 0 | A | C | 23.7% | 289.3 / 26.7 | 131 | V73G (GTA→GGA) | ypjA | adhesin‑like autotransporter YpjA |
| * | NC_000913 | 2,094,899 | 0 | A | C | 22.7% | 140.5 / 12.2 | 66 | Y122S (TAC→TCC) | hisH | imidazole glycerol phosphate synthase subunit HisH |
| Marginal new junction evidence (lowest skew 10 of 14 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 4542682 = | 69 (0.780) | 11 (0.130) | 10/260 | 4.9 | 13.1% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 82 (1.000) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 2406341 | 65 (0.740) | 11 (0.130) | 7/278 | 6.3 | 14.5% | coding (301/939 nt) | lrhA | DNA‑binding transcriptional dual regulator LrhA |
| ? | NC_000913 | = 3131340 | NA (NA) | noncoding (1195/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 608007 = | NA (NA) | 5 (0.070) | 4/226 | 6.7 | 5.3% | noncoding (1/1345 nt) | IS186 | repeat region |
| ? | NC_000913 | 609352 = | 90 (1.260) | intergenic (+175/+107) | insL‑2/entD | IS186/IS421 transposase/phosphopantetheinyl transferase EntD | |||||
| * | ? | NC_000913 | = 4542690 | 64 (0.730) | 6 (0.070) | 5/260 | 6.8 | 7.8% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 82 (1.000) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 4353774 = | 120 (1.360) | 4 (0.050) | 4/260 | 7.3 | 3.6% | coding (944/1518 nt) | lysU | lysine‑‑tRNA ligase/Ap4A synthetase/Ap3A synthetase |
| ? | NC_000913 | 4353912 = | 102 (1.240) | coding (806/1518 nt) | lysU | lysine‑‑tRNA ligase/Ap4A synthetase/Ap3A synthetase | |||||
| * | ? | NC_000913 | 226608 = | NA (NA) | 6 (0.070) | 4/264 | 7.4 | NA | noncoding (850/2904 nt) | rrlH | 23S ribosomal RNA |
| ? | NC_000913 | 226686 = | NA (NA) | noncoding (928/2904 nt) | rrlH | 23S ribosomal RNA | |||||
| * | ? | NC_000913 | = 2518224 | 79 (0.900) | 3 (0.040) | 3/242 | 7.5 | 5.0% | noncoding (8/76 nt) | alaW | tRNA‑Ala |
| ? | NC_000913 | = 2521057 | 46 (0.600) | noncoding (7/76 nt) | valX | tRNA‑Val | |||||
| * | ? | NC_000913 | 315401 = | NA (NA) | 3 (0.040) | 3/252 | 7.7 | NA | noncoding (173/1255 nt) | IS3 | repeat region |
| ? | NC_000913 | 315627 = | NA (NA) | noncoding (399/1255 nt) | IS3 | repeat region | |||||
| * | ? | NC_000913 | 1997964 = | 84 (0.960) | 4 (0.050) | 3/262 | 7.9 | 5.1% | coding (516/669 nt) | tcyL | cystine ABC transporter membrane subunit |
| ? | NC_000913 | 1998031 = | 69 (0.830) | coding (449/669 nt) | tcyL | cystine ABC transporter membrane subunit | |||||
| * | ? | NC_000913 | 2683552 = | 85 (0.970) | 3 (0.040) | 3/266 | 8.0 | 3.7% | coding (690/1194 nt) | yphH | putative DNA‑binding transcriptional regulator, NAGC‑like |
| ? | NC_000913 | 2683644 = | 75 (0.890) | coding (782/1194 nt) | yphH | putative DNA‑binding transcriptional regulator, NAGC‑like | |||||