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 8426 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 4,411,135 | 0 | A | . | 67.7% | 26.7 / 15.3 | 32 | coding (583/699 nt) | yjfJ | putative transcriptional regulator effector protein |
| * | NC_000913 | 2,714,364 | 0 | T | . | 65.4% | 8.4 / 14.9 | 26 | intergenic (+134/+75) | srmB/yfiE | ATP‑dependent RNA helicase SrmB/putative LysR‑type DNA‑binding transcriptional regulator YfiE |
| * | NC_000913 | 3,697,961 | 0 | G | . | 65.0% | 15.5 / 28.3 | 40 | coding (1504/1572 nt) | bcsE | c‑di‑GMP‑binding protein BcsE |
| * | NC_000913 | 2,375,231 | 0 | T | . | 64.7% | 17.2 / 15.5 | 34 | coding (732/963 nt) | menC | o‑succinylbenzoate synthase |
| * | NC_000913 | 3,705,464 | 0 | A | . | 64.3% | 2.5 / 22.6 | 28 | coding (327/1020 nt) | dppB | dipeptide ABC transporter membrane subunit DppB |
| * | NC_000913 | 2,702,049 | 1 | . | C | 63.5% | 103.5 / 41.9 | 52 | coding (421/729 nt) | recO | DNA repair protein RecO |
| * | NC_000913 | 3,967,698 | 0 | C | . | 62.5% | ‑6.0 / 18.4 | 25 | intergenic (+22/‑218) | rho/rfe | transcription termination factor Rho/UDP‑N‑acetylglucosamine‑‑undecaprenyl‑phosphate N‑acetylglucosaminephosphotransferase |
| * | NC_000913 | 3,345,204 | 0 | A | . | 62.1% | 6.4 / 28.1 | 29 | coding (488/1434 nt) | rpoN | RNA polymerase, sigma 54 (sigma N) factor |
| * | NC_000913 | 2,643,094 | 0 | C | . | 61.5% | 4.2 / 22.3 | 26 | intergenic (‑250/+35) | rodZ/rlmN | transmembrane component of cytoskeleton/23S rRNA m(2)A2503 methyltransferase/tRNA m(2)A37 methyltransferase |
| * | NC_000913 | 3,505,843 | 0 | C | . | 61.5% | ‑2.6 / 11.6 | 13 | coding (178/1086 nt) | yhfS | putative aminotransferase YhfS |
| * | NC_000913 | 496,976 | 0 | C | . | 61.1% | 18.9 / 25.4 | 36 | coding (1857/1875 nt) | htpG | chaperone protein HtpG |
| * | NC_000913 | 953,457 | 0 | T | . | 61.0% | 17.9 / 25.6 | 41 | coding (98/2283 nt) | pflB | pyruvate formate‑lyase |
| * | NC_000913 | 295,230 | 1 | . | T | 60.9% | 47.1 / 11.6 | 23 | coding (350/441 nt) | yagN | CP4‑6 prophage; protein YagN |
| * | NC_000913 | 4,602,047 | 0 | G | . | 60.6% | 34.9 / 159.0 | 171 | coding (51/474 nt) | yjjB | putative succinate exporter YjjB |
| * | NC_000913 | 1,252,297 | 0 | G | . | 60.0% | 7.4 / 39.5 | 40 | coding (1232/1920 nt) | dhaR | DNA‑binding transcriptional dual regulator DhaR |
| * | NC_000913 | 2,803,109 | 0 | C | . | 60.0% | 54.3 / 59.0 | 40 | coding (1762/2145 nt) | nrdE | ribonucleoside‑diphosphate reductase 2 subunit alpha |
| * | NC_000913 | 520,664 | 0 | T | . | 59.5% | 7.1 / 29.7 | 37 | coding (249/2415 nt) | ybbP | putative ABC transporter membrane subunit YbbP |
| * | NC_000913 | 1,735,602 | 0 | T | . | 59.5% | 3.6 / 33.9 | 37 | coding (225/582 nt) | sodB | superoxide dismutase (Fe) |
| * | NC_000913 | 1,888,593 | 0 | G | . | 59.5% | 12.5 / 27.0 | 37 | coding (1154/1686 nt) | fadD | fatty acyl‑CoA synthetase |
| * | NC_000913 | 2,840,930 | 0 | A | . | 59.5% | 2.9 / 37.1 | 37 | coding (1407/1458 nt) | ascF | beta‑glucoside specific PTS enzyme IIBC component |
| Marginal new junction evidence (lowest skew 10 of 234 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 2932626 | 3955 (87.000) | 110 (2.460) +GGT |
60/368 | 0.0 | 2.7% | coding (388/1149 nt) | fucO | L‑1,2‑propanediol oxidoreductase |
| ? | NC_000913 | 2932627 = | 3955 (87.000) | coding (387/1149 nt) | fucO | L‑1,2‑propanediol oxidoreductase | |||||
| * | ? | NC_000913 | = 2932199 | 3646 (81.960) | 362 (8.090) +AAA |
72/360 | 0.0 | 9.0% | coding (815/1149 nt) | fucO | L‑1,2‑propanediol oxidoreductase |
| ? | NC_000913 | 2932200 = | 3676 (80.870) | coding (814/1149 nt) | fucO | L‑1,2‑propanediol oxidoreductase | |||||
| * | ? | NC_000913 | = 367419 | 2501 (55.910) | 171 (3.820) +AAA |
30/362 | 0.4 | 6.4% | coding (92/1083 nt) | lacI | DNA‑binding transcriptional repressor LacI |
| ? | NC_000913 | 367420 = | 2511 (55.240) | coding (91/1083 nt) | lacI | DNA‑binding transcriptional repressor LacI | |||||
| * | ? | NC_000913 | = 366270 | 2570 (57.770) | 84 (1.880) +AAA |
31/360 | 0.4 | 3.1% | coding (36/3075 nt) | lacZ | beta‑galactosidase |
| ? | NC_000913 | 366271 = | 2695 (59.290) | coding (35/3075 nt) | lacZ | beta‑galactosidase | |||||
| * | ? | NC_000913 | = 2932895 | 2285 (51.360) | 138 (3.090) +TTT |
25/360 | 0.8 | 5.7% | coding (119/1149 nt) | fucO | L‑1,2‑propanediol oxidoreductase |
| ? | NC_000913 | 2932896 = | 2304 (50.680) | coding (118/1149 nt) | fucO | L‑1,2‑propanediol oxidoreductase | |||||
| * | ? | NC_000913 | = 527367 | 57 (1.300) | 13 (0.290) +TTT |
12/354 | 2.7 | 18.4% | coding (4107/4281 nt) | rhsD | protein RhsD |
| ? | NC_000913 | 527368 = | 58 (1.280) | coding (4108/4281 nt) | rhsD | protein RhsD | |||||
| * | ? | NC_000913 | = 4424456 | 32 (0.700) | 12 (0.260) | 11/374 | 3.2 | 27.0% | intergenic (+70/+60) | ulaF/yjfY | L‑ribulose‑5‑phosphate 4‑epimerase UlaF/DUF1471 domain‑containing protein YjfY |
| ? | NC_000913 | 4424460 = | 33 (0.730) | intergenic (+74/+56) | ulaF/yjfY | L‑ribulose‑5‑phosphate 4‑epimerase UlaF/DUF1471 domain‑containing protein YjfY | |||||
| * | ? | NC_000913 | = 4459309 | 25 (0.570) | 12 (0.270) +AAAA |
9/352 | 3.5 | 32.1% | coding (1351/1353 nt) | pmbA | metalloprotease PmbA |
| ? | NC_000913 | 4459310 = | 26 (0.570) | coding (1352/1353 nt) | pmbA | metalloprotease PmbA | |||||
| * | ? | NC_000913 | = 3820800 | 32 (0.700) | 12 (0.260) | 10/374 | 3.5 | 27.3% | coding (371/1683 nt) | ligB | DNA ligase B |
| ? | NC_000913 | 3820804 = | 32 (0.700) | coding (367/1683 nt) | ligB | DNA ligase B | |||||
| * | ? | NC_000913 | = 2901819 | 42 (0.950) | 10 (0.220) +AAA |
9/356 | 3.5 | 19.2% | coding (1228/1278 nt) | yqcE | putative transport protein YqcE |
| ? | NC_000913 | 2901820 = | 42 (0.920) | coding (1229/1278 nt) | yqcE | putative transport protein YqcE | |||||