mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
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 | 1,287,467 | 0 | T | C | 62.5% | 315.3 / inf | 291 | intergenic (‑139/+71) | tyrV/tyrT | tRNA‑Tyr/tRNA‑Tyr |
| * | NC_000913 | 4,080,072 | 0 | T | C | 58.4% | 256.9 / inf | 368 | intergenic (+103/+227) | yiiF/fdhE | protein YiiF/formate dehydrogenase formation protein |
| * | NC_000913 | 2,017,423 | 1 | . | C | 56.1% | inf / inf | 296 | coding (870/1374 nt) | fliI | flagellum‑specific ATP synthase FliI |
| * | NC_000913 | 1,875,050 | 1 | . | C | 55.6% | inf / inf | 258 | coding (527/822 nt) | nimR | DNA‑binding transcriptional repressor NimR |
| * | NC_000913 | 4,296,060 | 0 | C | T | 31.3% | 1036.9 / inf | 595 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 4,093,134 | 0 | T | G | 24.6% | 819.0 / 95.8 | 353 | Y102S (TAC→TCC) | rhaM | L‑rhamnose mutarotase |
| * | NC_000913 | 2,710,024 | 0 | T | C | 22.1% | 734.2 / 228.8 | 326 | R47R (AGA→AGG) | rseD | rpoE leader peptide |
| 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 | 287 (0.790) | 135 (0.450) | 89/162 | 5.9 | 37.3% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 215 (0.710) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 1207790 = | 285 (0.790) | 132 (0.440) | 88/162 | 6.1 | 36.0% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 232 (0.770) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 71350 | 400 (1.100) | 126 (0.360) | 58/188 | 17.5 | 39.4% | 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 | 293 (0.810) | 26 (0.080) | 18/164 | 32.1 | 8.3% | pseudogene (38/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment |
| ? | NC_000913 | 2471897 = | 327 (1.070) | pseudogene (166/519 nt) | yfdL | CPS‑53 (KpLE1) prophage; putative uncharacterized protein YfdL | |||||
| * | ? | NC_000913 | 4542682 = | 471 (1.300) | 19 (0.060) | 18/176 | 33.7 | 4.2% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 444 (1.350) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 4542690 | 481 (1.330) | 18 (0.050) | 17/176 | 34.4 | 3.9% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 443 (1.350) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||