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 | 3,596,465 | 0 | T | C | 71.4% | 61.0 / 27.8 | 42 | T366A (ACG→GCG) | livK | L‑leucine/L‑phenylalanine ABC transporter periplasmic binding protein |
| * | NC_000913 | 1,568,375 | 0 | T | C | 68.7% | 85.4 / 52.3 | 67 | H150R (CAC→CGC) | yddW | putative lipoprotein YddW |
| * | NC_000913 | 3,332,929 | 0 | T | C | 57.1% | 10.1 / 29.7 | 28 | D64G (GAC→GGC) | rpmA | 50S ribosomal subunit protein L27 |
| * | NC_000913 | 2,555,438 | 0 | G | A | 54.2% | 6.9 / 62.2 | 48 | P97P (CCC→CCT) | eutK | putative structural protein, ethanolamine utilization microcompartment |
| * | NC_000913 | 3,206,435 | 0 | C | T | 42.9% | 17.0 / 18.9 | 28 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 3,242,234 | 0 | C | T | 42.0% | 23.6 / 57.8 | 50 | G361S (GGC→AGC) | uxaA | D‑altronate dehydratase |
| * | NC_000913 | 2,460,192 | 0 | T | C | 38.6% | 37.4 / 61.0 | 57 | Y93C (TAC→TGC) | fadI | 3‑ketoacyl‑CoA thiolase FadI |
| * | NC_000913 | 4,296,060 | 0 | C | T | 34.8% | 81.3 / 58.6 | 66 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 4,111,747 | 0 | G | T | 34.5% | 56.1 / 12.7 | 29 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 650,809 | 0 | T | G | 34.2% | 61.1 / 11.4 | 41 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 4,604,344 | 0 | C | T | 34.2% | 53.1 / 16.5 | 41 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 3,740,909 | 0 | T | G | 30.4% | 81.6 / 13.8 | 46 | V402G (GTG→GGG) | avtA | valine‑‑pyruvate aminotransferase |
| * | NC_000913 | 2,844,574 | 0 | T | C | 29.8% | 52.1 / 32.8 | 47 | D60G (GAC→GGC) | hycF | formate hydrogenlyase subunit HycF |
| * | NC_000913 | 1,068,173 | 0 | T | G | 28.9% | 84.6 / 11.0 | 45 | G31G (GGT→GGG) | ymdF | conserved protein YmdF |
| * | NC_000913 | 2,707,248 | 0 | T | C | 26.1% | 113.1 / 45.1 | 69 | intergenic (‑124/+74) | lepA/rseC | elongation factor 4/protein RseC |
| * | NC_000913 | 2,326,450 | 0 | T | G | 25.7% | 63.7 / 14.1 | 35 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 4,517,275 | 0 | A | G | 24.3% | 62.1 / 18.3 | 37 | V148A (GTC→GCC) | fecR | regulator for fec operon, periplasmic |
| * | NC_000913 | 372,640 | 0 | T | G | 23.5% | 105.5 / 12.5 | 51 | L176V (TTA→GTA) | mhpD | 2‑hydroxypentadienoate hydratase |
| * | NC_000913 | 2,148,906 | 0 | T | C | 21.9% | 60.7 / 17.6 | 41 | R411R (CGT→CGC) | yegD | HSP70 family protein YegD |
| 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 | 4542682 = | 31 (0.550) | 10 (0.190) | 10/256 | 3.3 | 26.7% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 26 (0.490) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 1207790 = | 60 (1.060) | 13 (0.260) | 9/242 | 3.4 | 21.0% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 45 (0.900) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 58 (1.030) | 8 (0.160) | 8/242 | 3.7 | 14.3% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 45 (0.900) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||