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 | ||
| * | CP009273 | 357,031 | 0 | C | A | 28.1% | 107.3 / 13.4 | 64 | V181F (GTT→TTT) | lacA | thiogalactoside acetyltransferase |
| * | CP009273 | 4,172,857 | 0 | A | T | 27.8% | 30.2 / 13.0 | 18 | E562V (GAA→GTA) | rpoB | RNA polymerase, beta subunit |
| * | CP009273 | 4,178,501 | 0 | G | C | 26.7% | 45.6 / 25.7 | 31 | R1075P (CGT→CCT) | rpoC | RNA polymerase, beta prime subunit |
| * | CP009273 | 2,222,692 | 0 | G | C | 22.0% | 392.6 / 51.6 | 159 | intergenic (+148/+225) | yohP/dusC | uncharacterized protein/tRNA‑dihydrouridine synthase C |
| * | CP009273 | 2,222,669 | 0 | T | A | 21.5% | 306.2 / 32.6 | 159 | intergenic (+125/+248) | yohP/dusC | uncharacterized protein/tRNA‑dihydrouridine synthase C |
| Marginal new junction evidence (lowest skew 10 of 14 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | = 370385 | 91 (2.060) | 8 (0.200) | 6/182 | 1.4 | 8.8% | intergenic (+48/‑530) | mhpE/mhpT | 4‑hyroxy‑2‑oxovalerate/4‑hydroxy‑2‑oxopentanoic acid aldolase, class I/3‑hydroxyphenylpropionic transporter |
| ? | CP009273 | = 372977 | NA (NA) | noncoding (187/187 nt) | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences | |||||
| * | ? | CP009273 | = 4148746 | 62 (1.050) | 5 (0.080) | 5/268 | 2.1 | 7.6% | coding (329/918 nt) | oxyR | oxidative and nitrosative stress transcriptional regulator |
| ? | CP009273 | 4148750 = | 59 (1.000) | coding (333/918 nt) | oxyR | oxidative and nitrosative stress transcriptional regulator | |||||
| * | ? | CP009273 | 4363103 = | 23 (0.480) | 6 (0.120) | 3/218 | 2.3 | 20.7% | noncoding (90/99 nt) | RIP328 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP328 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | CP009273 | 4364325 = | NA (NA) | noncoding (11/99 nt) | RIP329 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP329 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | CP009273 | 4363113 = | 31 (0.560) | 7 (0.130) | 3/248 | 2.5 | 18.5% | intergenic (+134/+69) | yjeI/yjeJ | DUF4156 family lipoprotein/uncharacterized protein |
| ? | CP009273 | 4364315 = | NA (NA) | noncoding (1/99 nt) | RIP329 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP329 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | CP009273 | 2567481 = | 135 (2.280) | 3 (0.050) | 3/254 | 2.5 | 2.2% | coding (184/804 nt) | eutT | cobalamin adenosyltransferase involved in ethanolamine utilization |
| ? | CP009273 | = 2567477 | 135 (2.400) | coding (188/804 nt) | eutT | cobalamin adenosyltransferase involved in ethanolamine utilization | |||||
| * | ? | CP009273 | 2637051 = | 72 (1.220) | 3 (0.050) | 3/266 | 2.6 | 3.8% | coding (592/1155 nt) | rlmN | dual specificity 23S rRNA m(2)A2503, tRNA m(2)A37 methyltransferase, SAM‑dependent |
| ? | CP009273 | = 2637167 | 80 (1.360) | coding (476/1155 nt) | rlmN | dual specificity 23S rRNA m(2)A2503, tRNA m(2)A37 methyltransferase, SAM‑dependent | |||||
| * | ? | CP009273 | 2623904 = | 62 (1.050) | 5 (0.090) | 3/264 | 2.6 | 3.5% | coding (220/540 nt) | yfgI | nalidixic acid resistance protein, putative periplasmic protein |
| ? | CP009273 | 3846863 = | 217 (3.720) | intergenic (‑246/‑50) | istR/tisB | sRNA antisense regulators IstR‑1 and IstR‑2, affectr tisB, Hfq‑dependent/toxic membrane persister formation peptide, LexA‑regulated | |||||
| * | ? | CP009273 | 2445920 = | 27 (0.460) | 3 (0.050) | 3/266 | 2.6 | 12.0% | pseudogene (2561/2646 nt) | yfcU | pseudogene, FimD fimbrial export usher family;putative membrane; Not classified; putative outer membrane protein |
| ? | CP009273 | 3888378 = | 17 (0.290) | coding (367/567 nt) | chrR | chromate reductase, Class I, flavoprotein | |||||
| * | ? | CP009273 | 2291856 = | 111 (1.870) | 5 (0.090) | 3/264 | 2.6 | 3.9% | coding (342/450 nt) | napB | nitrate reductase, small, cytochrome C550 subunit, periplasmic |
| ? | CP009273 | = 2292089 | 139 (2.380) | coding (109/450 nt) | napB | nitrate reductase, small, cytochrome C550 subunit, periplasmic | |||||
| * | ? | CP009273 | 2111947 = | NA (NA) | 3 (0.050) | 3/264 | 2.6 | 9.7% | noncoding (1/186 nt) | REP144 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP144 (repetitive extragenic palindromic) element; contains 4 REP sequences |
| ? | CP009273 | 3814234 = | 28 (0.480) | coding (297/1683 nt) | ligB | DNA ligase, NAD(+)‑dependent | |||||