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 | 4,282,984 | 0 | G | T | 48.0% | 77.2 / 149.7 | 100 | T31K (ACA→AAA) | yjcF | pentapeptide repeat‑containing protein YjcF |
| * | NC_000913 | 4,604,344 | 0 | C | T | 32.6% | 71.1 / 18.5 | 49 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 4,568,504 | 0 | T | G | 32.3% | 179.6 / 15.9 | 101 | T6P (ACC→CCC) | mdtM | multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| * | NC_000913 | 4,296,060 | 0 | C | T | 32.1% | 120.7 / 67.1 | 81 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 2,667,126 | 0 | A | C | 28.1% | 103.7 / 10.3 | 57 | Y241D (TAT→GAT) | hcaT | putative 3‑phenylpropionate transporter |
| * | NC_000913 | 445,558 | 0 | A | C | 27.9% | 73.3 / 18.2 | 43 | V370G (GTA→GGA) | yajR | putative major facilitator superfamily transport protein YajR |
| * | NC_000913 | 4,098,155 | 0 | A | C | 26.5% | 159.3 / 15.6 | 83 | L140F (TTA→TTC) | rhaS | DNA‑binding transcriptional activator RhaS |
| * | NC_000913 | 4,429,984 | 0 | T | G | 25.8% | 134.7 / 14.8 | 62 | L41V (TTG→GTG) | cycA | serine/alanine/glycine/cycloserine:H(+)symporter |
| * | NC_000913 | 3,401,459 | 0 | T | C | 25.8% | 184.0 / 21.9 | 97 | D625G (GAT→GGT) | csrD | regulator of CsrB and CsrC decay |
| * | NC_000913 | 650,809 | 0 | T | G | 25.8% | 133.9 / 16.7 | 66 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 3,404,215 | 0 | T | G | 25.5% | 102.7 / 14.6 | 51 | G244G (GGT→GGG) | yhdH | acrylyl‑CoA reductase |
| * | NC_000913 | 332,991 | 0 | G | T | 24.1% | 145.9 / 16.3 | 58 | L207F (TTG→TTT) | pdeL | DNA‑binding transcriptional activator/c‑di‑GMP phosphodiesterase PdeL |
| * | NC_000913 | 29,496 | 0 | T | A | 22.0% | 126.2 / 13.3 | 50 | intergenic (+301/‑155) | dapB/carA | 4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha |
| * | NC_000913 | 2,326,450 | 0 | T | G | 20.8% | 102.5 / 20.3 | 48 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 2,236,876 | 0 | A | C | 20.8% | 181.4 / 10.4 | 77 | V293G (GTA→GGA) | mglC | D‑galactose/methyl‑galactoside ABC transporter membrane subunit |
| * | NC_000913 | 1,550,663 | 0 | A | C | 20.0% | 113.6 / 11.0 | 50 | N68T (AAC→ACC) | fdnH | formate dehydrogenase N subunit beta |
| 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 | = 4542690 | 62 (0.730) | 13 (0.160) | 9/260 | 4.6 | 16.5% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 74 (0.930) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 4542682 = | 66 (0.780) | 6 (0.080) | 6/260 | 5.6 | 8.1% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 75 (0.950) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 1979337 = | 53 (0.630) | 15 (0.180) | 6/278 | 5.9 | 22.1% | intergenic (‑122/‑416) | insA‑5/uspC | IS1 protein InsA/universal stress protein C |
| ? | NC_000913 | 2101749 = | NA (NA) | noncoding (1195/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 608007 = | NA (NA) | 8 (0.120) | 4/226 | 6.0 | 12.1% | noncoding (1/1345 nt) | IS186 | repeat region |
| ? | NC_000913 | 609352 = | 58 (0.840) | intergenic (+175/+107) | insL‑2/entD | IS186/IS421 transposase/phosphopantetheinyl transferase EntD | |||||
| * | ? | NC_000913 | 1722616 = | 102 (1.200) | 3 (0.040) | 3/256 | 7.0 | 3.0% | coding (496/2013 nt) | ydhK | putative transporter YdhK |
| ? | NC_000913 | = 1722612 | 97 (1.240) | coding (492/2013 nt) | ydhK | putative transporter YdhK | |||||
| * | ? | NC_000913 | = 3108817 | 87 (1.030) | 3 (0.040) | 3/276 | 7.3 | 3.4% | coding (339/2136 nt) | speC | ornithine decarboxylase, biosynthetic |
| ? | NC_000913 | 3108821 = | 86 (1.020) | coding (335/2136 nt) | speC | ornithine decarboxylase, biosynthetic | |||||
| * | ? | NC_000913 | = 1279830 | 92 (1.090) | 3 (0.040) | 3/278 | 7.4 | 3.2% | intergenic (+482/‑34) | narK/narG | nitrate:nitrite antiporter NarK/nitrate reductase A subunit alpha |
| ? | NC_000913 | 1279834 = | 92 (1.090) | intergenic (+486/‑30) | narK/narG | nitrate:nitrite antiporter NarK/nitrate reductase A subunit alpha | |||||