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 | 1,825,061 | 0 | G | A | 47.1% | 8.1 / 11.9 | 17 | intergenic (‑124/+79) | ves/spy | HutD family protein Ves/ATP‑independent periplasmic chaperone |
| * | NC_000913 | 4,604,344 | 0 | C | T | 44.9% | 40.9 / 40.8 | 49 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 4,296,060 | 0 | C | T | 34.0% | 72.4 / 44.6 | 50 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 2,001,918 | 0 | A | C | 30.6% | 55.6 / 13.5 | 36 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 1,645,034 | 0 | A | C | 25.0% | 80.5 / 11.2 | 44 | intergenic (‑132/+85) | rem/hokD | Qin prophage; protein Rem/Qin prophage; toxic protein HokD |
| * | NC_000913 | 4,429,984 | 0 | T | G | 23.4% | 96.1 / 10.4 | 47 | L41V (TTG→GTG) | cycA | serine/alanine/glycine/cycloserine:H(+)symporter |
| * | NC_000913 | 3,926,366 | 0 | A | C | 21.6% | 106.6 / 11.5 | 51 | G30G (GGT→GGG) | mioC | flavoprotein MioC |
| 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 | = 1978494 | 0 (0.000) | 10 (0.220) | 7/276 | 3.1 | 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 | = 4542690 | 45 (0.990) | 6 (0.140) | 6/258 | 3.2 | 12.8% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 40 (0.940) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 1207805 | 50 (1.100) | 4 (0.100) | 4/244 | 3.7 | 8.3% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 44 (1.100) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 608007 = | NA (NA) | 3 (0.080) | 3/224 | 3.9 | 6.4% | noncoding (1/1345 nt) | IS186 | repeat region |
| ? | NC_000913 | 609352 = | 44 (1.190) | intergenic (+175/+107) | insL‑2/entD | IS186/IS421 transposase/phosphopantetheinyl transferase EntD | |||||
| * | ? | NC_000913 | = 1968334 | 39 (0.860) | 3 (0.070) | 3/272 | 4.4 | 7.2% | coding (168/1050 nt) | cheB | protein‑glutamate methylesterase/protein glutamine deamidase |
| ? | NC_000913 | 1968339 = | 39 (0.870) | coding (163/1050 nt) | cheB | protein‑glutamate methylesterase/protein glutamine deamidase | |||||
| * | ? | NC_000913 | 1979271 = | 0 (0.000) | 3 (0.070) | 3/276 | 4.5 | 100% | intergenic (‑56/‑482) | insA‑5/uspC | IS1 protein InsA/universal stress protein C |
| ? | NC_000913 | 2101745 = | NA (NA) | intergenic (‑1/+150) | wbbL/insH‑7 | interrupted rhamnosyltransferase WbbL/IS5 transposase and trans‑activator | |||||
| * | ? | NC_000913 | = 1978494 | 0 (0.000) | 3 (0.070) | 3/276 | 4.5 | 100% | intergenic (‑297/+24) | flhD/insB‑5 | DNA‑binding transcriptional dual regulator FlhD/IS1 protein InsB |
| ? | NC_000913 | = 2067353 | NA (NA) | noncoding (1/1195 nt) | IS5 | repeat region | |||||