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 | 2,288,555 | 0 | C | . | 59.3% | 325.7 / inf | 509 | pseudogene (360/2525 nt) | yejO | adhesin‑like autotransporter YejO |
| * | NC_000913 | 2,089,433 | 0 | G | A | 58.6% | 546.1 / inf | 754 | D11D (GAC→GAT) | yoeB | ribosome‑dependent mRNA interferase toxin YoeB |
| * | NC_000913 | 2,128,178 | 0 | T | C | 40.2% | 497.0 / inf | 619 | H46R (CAC→CGC) | gmd | GDP‑mannose 4,6‑dehydratase |
| * | NC_000913 | 2,176,693 | 0 | G | A | 36.8% | 725.7 / inf | 625 | S171F (TCC→TTC) | gatY | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY |
| * | NC_000913 | 2,265,805 | 0 | C | T | 35.8% | 794.2 / inf | 639 | T119I (ACC→ATC) | yeiP | elongation factor P family protein |
| * | NC_000913 | 2,067,300 | 0 | C | T | 35.1% | 447.2 / inf | 405 | G8R (GGA→AGA) | insH‑6 | CP4‑44 prophage; IS5 transposase and trans‑activator |
| * | NC_000913 | 2,144,476 | 0 | C | T | 34.8% | 775.9 / inf | 590 | P404L (CCG→CTG) | dgcE | putative diguanylate cyclase DgcE |
| * | NC_000913 | 2,267,668 | 0 | A | G | 30.6% | 1123.1 / inf | 671 | Q475R (CAA→CGA) | yeiQ | putative dehydrogenase, NAD‑dependent |
| * | NC_000913 | 4,296,060 | 0 | C | T | 29.3% | 839.4 / inf | 430 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 3,300,218 | 0 | T | G | 26.2% | 288.8 / 26.0 | 123 | F85V (TTT→GTT) | yhbQ | DNA damage response nuclease YhbQ |
| * | NC_000913 | 1,157,271 | 0 | T | G | 21.5% | 620.6 / 41.3 | 223 | G165G (GGT→GGG) | ycfH | putative metal‑dependent hydrolase YcfH |
| * | NC_000913 | 4,161,154 | 0 | A | C | 20.6% | 605.8 / 45.3 | 219 | T30P (ACC→CCC) | fabR | DNA‑binding transcriptional repressor FabR |
| * | NC_000913 | 2,326,450 | 0 | T | G | 20.0% | 657.0 / 36.7 | 226 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| 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 | = 1207805 | 104 (0.340) | 129 (0.510) | 88/162 | 3.4 | 56.9% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 109 (0.430) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 3982684 | 232 (0.760) | 178 (0.620) | 95/182 | 4.1 | 58.2% | noncoding (79/87 nt) | leuT | tRNA‑Leu |
| ? | NC_000913 | = 4606324 | 38 (0.130) | noncoding (78/87 nt) | leuQ | tRNA‑Leu | |||||
| * | ? | NC_000913 | = 71350 | 315 (1.040) | 105 (0.360) | 59/188 | 11.9 | 40.8% | intergenic (+85/‑1) | araC/yabI | DNA‑binding transcriptional dual regulator AraC/DedA family protein YabI |
| ? | NC_000913 | = 2857042 | 0 (0.000) | intergenic (‑236/‑51) | ygbA/mutS | protein YgbA/DNA mismatch repair protein MutS | |||||
| * | ? | NC_000913 | = 1209618 | 109 (0.360) | 22 (0.090) | 17/164 | 25.1 | 11.6% | pseudogene (38/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment |
| ? | NC_000913 | 2471897 = | 242 (0.940) | pseudogene (166/519 nt) | yfdL | CPS‑53 (KpLE1) prophage; putative uncharacterized protein YfdL | |||||
| * | ? | NC_000913 | = 4542690 | 423 (1.390) | 7 (0.030) | 5/176 | 35.1 | 1.8% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 371 (1.350) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 4542682 = | 403 (1.330) | 4 (0.010) | 4/176 | 36.1 | 1.1% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 372 (1.350) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||