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 | 4,178,410 | 0 | A | C | 71.6% | 164.5 / 74.6 | 95 | T1045P (ACC→CCC) | rpoC | RNA polymerase, beta prime subunit |
| * | CP009273 | 4,532,462 | 0 | G | T | 25.0% | 51.7 / 12.8 | 28 | intergenic (+12/‑470) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| * | CP009273 | 2,178,908 | 0 | T | G | 24.4% | 79.7 / 13.0 | 41 | intergenic (‑128/+95) | thiM/rcnR | hydoxyethylthiazole kinase/transcriptional repressor of rcnA |
| * | CP009273 | 2,470,495 | 0 | T | A | 24.3% | 66.3 / 23.9 | 37 | Q205L (CAG→CTG) | dsdC | dsd operon activator; autorepressor |
| * | CP009273 | 2,470,497 | 0 | T | A | 24.3% | 72.8 / 18.9 | 37 | R204S (AGA→AGT) ‡ | dsdC | dsd operon activator; autorepressor |
| * | CP009273 | 2,470,499 | 0 | T | A | 24.3% | 69.3 / 21.4 | 37 | R204* (AGA→TGA) ‡ | dsdC | dsd operon activator; autorepressor |
| * | CP009273 | 2,470,501 | 0 | T | G | 24.3% | 65.7 / 22.9 | 37 | D203A (GAC→GCC) | dsdC | dsd operon activator; autorepressor |
| * | CP009273 | 4,532,468 | 0 | A | T | 23.1% | 51.1 / 12.5 | 27 | intergenic (+18/‑464) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| * | CP009273 | 4,532,460 | 0 | T | A | 22.2% | 56.1 / 11.1 | 28 | intergenic (+10/‑472) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| * | CP009273 | 4,532,465 | 0 | A | C | 22.2% | 55.8 / 13.0 | 27 | intergenic (+15/‑467) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| * | CP009273 | 2,470,493 | 0 | C | A | 21.9% | 92.2 / 15.9 | 41 | A206S (GCA→TCA) | dsdC | dsd operon activator; autorepressor |
| * | CP009273 | 2,300,339 | 0 | C | A | 21.9% | 63.6 / 12.0 | 32 | intergenic (‑106/+112) | mqo/yojI | malate dehydrogenase, FAD/NAD(P)‑binding domain/microcin J25 efflux pump, TolC‑dependent; fused ABC transporter permease and ATP‑binding components |
| * | CP009273 | 4,532,459 | 0 | A | T | 21.4% | 58.2 / 12.4 | 28 | intergenic (+9/‑473) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| Marginal new junction evidence (lowest skew 10 of 240 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | 2060067 = | 23 (0.310) | 18 (0.260) | 17/254 | 3.7 | 45.1% | noncoding (768/1195 nt) | IS5 | repeat region |
| ? | CP009273 | 2095768 = | NA (NA) | noncoding (657/1195 nt) | IS5 | repeat region | |||||
| * | ? | CP009273 | 1422389 = | 71 (0.970) | 18 (0.260) | 17/254 | 3.7 | 28.8% | noncoding (663/1196 nt) | IS5 | repeat region |
| ? | CP009273 | 2060073 = | 21 (0.300) | noncoding (762/1195 nt) | IS5 | repeat region | |||||
| * | ? | CP009273 | = 1391062 | NA (NA) | 18 (0.260) | 17/254 | 3.7 | 21.0% | coding (730/1017 nt) | insH1 | IS5 transposase and trans‑activator |
| ? | CP009273 | 1422389 = | 71 (0.970) | noncoding (663/1196 nt) | IS5 | repeat region | |||||
| * | ? | CP009273 | 270093 = | NA (NA) | 18 (0.260) | 17/254 | 3.7 | NA | noncoding (768/1195 nt) | IS5 | repeat region |
| ? | CP009273 | 270204 = | NA (NA) | noncoding (657/1195 nt) | IS5 | repeat region | |||||
| * | ? | CP009273 | 270331 = | NA (NA) | 18 (0.260) | 15/248 | 4.0 | NA | noncoding (126/335 nt) | IS911 | repeat region |
| ? | CP009273 | 270374 = | NA (NA) | noncoding (169/335 nt) | IS911 | repeat region | |||||
| * | ? | CP009273 | 270385 = | NA (NA) | 18 (0.260) | 14/250 | 4.3 | NA | noncoding (180/335 nt) | IS911 | repeat region |
| ? | CP009273 | 270482 = | NA (NA) | noncoding (277/335 nt) | IS911 | repeat region | |||||
| * | ? | CP009273 | 2336039 = | 48 (0.650) | 14 (0.200) | 13/252 | 4.6 | 18.9% | coding (1610/3753 nt) | yfaL | adhesin |
| ? | CP009273 | 2336139 = | 75 (1.080) | coding (1510/3753 nt) | yfaL | adhesin | |||||
| * | ? | CP009273 | = 1233929 | 78 (1.060) | 13 (0.190) | 12/252 | 4.9 | 15.7% | coding (903/1299 nt) | dadA | D‑amino acid dehydrogenase |
| ? | CP009273 | = 1233961 | 66 (0.950) | coding (935/1299 nt) | dadA | D‑amino acid dehydrogenase | |||||
| * | ? | CP009273 | 311167 = | NA (NA) | 17 (0.240) | 12/258 | 5.0 | NA | coding (166/300 nt) | insE1 | IS3 transposase A |
| ? | CP009273 | 311233 = | NA (NA) | coding (232/300 nt) | insE1 | IS3 transposase A | |||||
| * | ? | CP009273 | = 16653 | NA (NA) | 11 (0.160) | 11/252 | 5.1 | NA | noncoding (1267/1345 nt) | IS186 | repeat region |
| ? | CP009273 | = 16691 | NA (NA) | noncoding (1305/1345 nt) | IS186 | repeat region | |||||