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 (highest frequency 20 of 40 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 70,289 | 0 | G | T | 66.3% | 607.9 / inf | 531 | intergenic (‑241/‑98) | araB/araC | ribulokinase/DNA‑binding transcriptional dual regulator AraC |
| * | NC_000913 | 70,371 | 0 | T | C | 59.9% | 366.8 / inf | 479 | intergenic (‑323/‑16) | araB/araC | ribulokinase/DNA‑binding transcriptional dual regulator AraC |
| * | NC_000913 | 70,434 | 0 | C | T | 58.7% | 294.4 / inf | 490 | N16N (AAC→AAT) | araC | DNA‑binding transcriptional dual regulator AraC |
| * | NC_000913 | 70,581 | 0 | C | T | 58.0% | 279.3 / inf | 488 | V65V (GTC→GTT) | araC | DNA‑binding transcriptional dual regulator AraC |
| * | NC_000913 | 70,740 | 0 | T | G | 57.4% | 375.9 / inf | 472 | G118G (GGT→GGG) | araC | DNA‑binding transcriptional dual regulator AraC |
| * | NC_000913 | 71,079 | 0 | C | T | 52.6% | 83.7 / inf | 517 | R231R (CGC→CGT) | araC | DNA‑binding transcriptional dual regulator AraC |
| * | NC_000913 | 71,082 | 0 | T | C | 52.5% | 98.6 / inf | 509 | I232I (ATT→ATC) | araC | DNA‑binding transcriptional dual regulator AraC |
| * | NC_000913 | 71,109 | 0 | T | C | 51.7% | 65.9 / inf | 521 | T241T (ACT→ACC) | araC | DNA‑binding transcriptional dual regulator AraC |
| * | NC_000913 | 71,085 | 0 | T | C | 51.2% | 41.9 / inf | 503 | S233S (AGT→AGC) | araC | DNA‑binding transcriptional dual regulator AraC |
| * | NC_000913 | 1,834,470 | 0 | G | C | 46.8% | 51.9 / 42.8 | 64 | E119Q (GAA→CAA) ‡ | ydjY | 4Fe‑4S ferredoxin‑type domain‑containing protein YdjY |
| * | NC_000913 | 71,166 | 0 | T | C | 46.2% | 110.0 / inf | 466 | Y260Y (TAT→TAC) | araC | DNA‑binding transcriptional dual regulator AraC |
| * | NC_000913 | 71,175 | 0 | A | G | 44.3% | 170.6 / inf | 438 | R263R (CGA→CGG) | araC | DNA‑binding transcriptional dual regulator AraC |
| * | NC_000913 | 1,834,472 | 0 | A | C | 44.3% | 43.5 / 34.2 | 61 | E119D (GAA→GAC) ‡ | ydjY | 4Fe‑4S ferredoxin‑type domain‑containing protein YdjY |
| * | NC_000913 | 2,411,250 | 0 | C | A | 34.8% | 110.3 / 21.9 | 66 | V35F (GTC→TTC) | yfbS | putative transporter YfbS |
| * | NC_000913 | 71,214 | 0 | T | C | 33.9% | 459.7 / inf | 381 | F276F (TTT→TTC) | araC | DNA‑binding transcriptional dual regulator AraC |
| * | NC_000913 | 566,205 | 0 | T | C | 32.3% | 242.4 / 174.3 | 186 | pseudogene (157/264 nt) | exoD | DLP12 prophage; putative exonuclease ExoD |
| * | NC_000913 | 164,569 | 0 | C | G | 30.1% | 149.3 / 34.3 | 83 | intergenic (+35/‑161) | hrpB/mrcB | putative ATP‑dependent RNA helicase HrpB/peptidoglycan glycosyltransferase/peptidoglycan DD‑transpeptidase MrcB |
| * | NC_000913 | 566,245 | 0 | G | A | 30.0% | 273.7 / 153.8 | 183 | pseudogene (117/264 nt) | exoD | DLP12 prophage; putative exonuclease ExoD |
| * | NC_000913 | 2,965,101 | 0 | T | G | 30.0% | 65.6 / 10.5 | 40 | N19H (AAC→CAC) | thyA | thymidylate synthase |
| * | NC_000913 | 1,834,430 | 0 | A | T | 29.9% | 153.1 / 19.7 | 77 | A105A (GCA→GCT) | ydjY | 4Fe‑4S ferredoxin‑type domain‑containing protein YdjY |
| Marginal new junction evidence (lowest skew 10 of 207 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 4317084 | 379 (2.850) | 11 (0.090) | 7/284 | 2.2 | 2.8% | coding (135/1137 nt) | phnM | RPnTP hydrolase |
| ? | NC_000913 | = 4317119 | 389 (3.050) | coding (100/1137 nt) | phnM | RPnTP hydrolase | |||||
| * | ? | NC_000913 | = 4238364 | 322 (2.420) | 11 (0.090) | 7/276 | 2.2 | 3.5% | coding (731/2097 nt) | yjbH | YjbH family protein |
| ? | NC_000913 | = 4238390 | 310 (2.500) | coding (757/2097 nt) | yjbH | YjbH family protein | |||||
| * | ? | NC_000913 | 3521815 = | 158 (1.190) | 10 (0.080) | 7/278 | 2.2 | 6.8% | coding (158/540 nt) | hofN | DNA utilization protein HofN |
| ? | NC_000913 | 3521857 = | 127 (1.020) | coding (116/540 nt) | hofN | DNA utilization protein HofN | |||||
| * | ? | NC_000913 | 3505578 = | 460 (3.460) | 10 (0.080) | 7/284 | 2.2 | 2.3% | coding (443/1086 nt) | yhfS | putative aminotransferase YhfS |
| ? | NC_000913 | 3505614 = | 425 (3.340) | coding (407/1086 nt) | yhfS | putative aminotransferase YhfS | |||||
| * | ? | NC_000913 | 3092868 = | 119 (0.900) | 7 (0.060) | 7/278 | 2.2 | 6.3% | intergenic (+40/‑69) | gshB/yqgE | glutathione synthetase/DUF179 domain‑containing protein YqgE |
| ? | NC_000913 | 3092903 = | 97 (0.780) | intergenic (+75/‑34) | gshB/yqgE | glutathione synthetase/DUF179 domain‑containing protein YqgE | |||||
| * | ? | NC_000913 | = 3885280 | 333 (2.510) | 9 (0.070) | 7/286 | 2.3 | 2.7% | coding (205/1647 nt) | yidC | membrane protein insertase YidC |
| ? | NC_000913 | = 3885315 | 329 (2.560) | coding (240/1647 nt) | yidC | membrane protein insertase YidC | |||||
| * | ? | NC_000913 | = 3608196 | 255 (1.920) | 12 (0.090) | 7/290 | 2.3 | 4.6% | coding (1746/2199 nt) | zntA | Zn(2(+))/Cd(2(+))/Pb(2(+)) exporting P‑type ATPase |
| ? | NC_000913 | = 3608235 | 250 (1.920) | coding (1785/2199 nt) | zntA | Zn(2(+))/Cd(2(+))/Pb(2(+)) exporting P‑type ATPase | |||||
| * | ? | NC_000913 | 487090 = | 207 (1.560) | 7 (0.050) | 7/286 | 2.3 | 3.4% | coding (555/3363 nt) | mscK | potassium dependent, small conductance mechanosensitive channel |
| ? | NC_000913 | 487137 = | 200 (1.560) | coding (602/3363 nt) | mscK | potassium dependent, small conductance mechanosensitive channel | |||||
| * | ? | NC_000913 | = 284691 | 429 (3.230) | 8 (0.060) | 7/288 | 2.3 | 1.8% | coding (1491/1968 nt) | yagF | CP4‑6 prophage; D‑xylonate dehydratase |
| ? | NC_000913 | = 284723 | 456 (3.530) | coding (1523/1968 nt) | yagF | CP4‑6 prophage; D‑xylonate dehydratase | |||||
| * | ? | NC_000913 | 4321860 = | 611 (4.600) | 7 (0.050) | 6/284 | 2.4 | 1.2% | coding (563/726 nt) | phnF | putative transcriptional regulator PhnF |
| ? | NC_000913 | 4321892 = | 552 (4.330) | coding (531/726 nt) | phnF | putative transcriptional regulator PhnF | |||||