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 |
| Predicted mutations | ||||||
|---|---|---|---|---|---|---|
| evidence | position | mutation | freq | annotation | gene | description |
| RA | 67,872 | C→T | 27.8% | A156T (GCC→ACC) | araA ← | L‑arabinose isomerase |
| RA | 70,289 | G→T | 100% | intergenic (‑241/‑98) | araB ← / → araC | ribulokinase/DNA‑binding transcriptional dual regulator AraC |
| RA | 70,371 | T→C | 100% | intergenic (‑323/‑16) | araB ← / → araC | ribulokinase/DNA‑binding transcriptional dual regulator AraC |
| RA | 70,434 | C→T | 100% | N16N (AAC→AAT) | araC → | DNA‑binding transcriptional dual regulator AraC |
| RA | 70,581 | C→T | 100% | V65V (GTC→GTT) | araC → | DNA‑binding transcriptional dual regulator AraC |
| RA | 70,740 | T→G | 100% | G118G (GGT→GGG) | araC → | DNA‑binding transcriptional dual regulator AraC |
| RA | 71,079 | C→T | 100% | R231R (CGC→CGT) | araC → | DNA‑binding transcriptional dual regulator AraC |
| RA | 71,082 | T→C | 100% | I232I (ATT→ATC) | araC → | DNA‑binding transcriptional dual regulator AraC |
| RA | 71,085 | T→C | 100% | S233S (AGT→AGC) | araC → | DNA‑binding transcriptional dual regulator AraC |
| RA | 71,109 | T→C | 100% | T241T (ACT→ACC) | araC → | DNA‑binding transcriptional dual regulator AraC |
| RA | 71,175 | A→G | 100% | R263R (CGA→CGG) | araC → | DNA‑binding transcriptional dual regulator AraC |
| RA | 71,214 | T→C | 100% | F276F (TTT→TTC) | araC → | DNA‑binding transcriptional dual regulator AraC |
| RA | 71,272 | A→C | 100% | intergenic (+7/‑79) | araC → / → yabI | DNA‑binding transcriptional dual regulator AraC/DedA family protein YabI |
| MC JC | 257,908 | Δ776 bp | 100% | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 366,290 | C→T | 100% | D6N (GAT→AAT) | lacZ ← | beta‑galactosidase |
| RA | 366,300 | Δ1 bp | 100% | coding (6/3075 nt) | lacZ ← | beta‑galactosidase |
| RA | 366,521 | C→T | 78.3% | L330L (CTG→CTA) | lacI ← | DNA‑binding transcriptional repressor LacI |
| MC JC | 1,397,381 | Δ13,756 bp | 100% | [ynaJ]–[ttcA] | 16 genes [ynaJ], uspE, fnr, ogt, abgT, abgB, abgA, abgR, mcaS, smrA, dgcM, zntB, fnrS, ynaL, dbpA, [ttcA] |
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| MC JC | 1,978,503 | Δ776 bp | 100% | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| RA | 2,173,361 | Δ2 bp | 100% | pseudogene (917‑918/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 3,535,733 | A→C | 100% | F46V (TTT→GTT) | envZ ← | sensory histidine kinase EnvZ |
| RA | 3,560,455:1 | +G | 100% | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 4,296,060 | C→T | 27.3% | intergenic (+266/+376) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,296,380:1 | +CG | 100% | intergenic (+586/+56) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3423702–3424234 | 3424593–3424238 | 5–892 | 55 [54] | [53] 55 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 71275 | 104 (0.970) | 23222 (227.910) +GCTC |
158/168 | NT | 99.6% | intergenic (+10/‑76) | araC/yabI | DNA‑binding transcriptional dual regulator AraC/DedA family protein YabI |
| ? | NC_000913 | 366286 = | 112 (1.050) | coding (20/3075 nt) | lacZ | beta‑galactosidase | |||||
| * | ? | NC_000913 | 1207790 = | 28 (0.260) | 51 (0.590) | 39/144 | NT | 65.4% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 31 (0.360) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 29 (0.270) | 54 (0.620) | 42/144 | NT | 66.4% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 31 (0.360) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 96 (0.940) | 69/168 | NT | 100% | intergenic (+253/‑33) | ychE/insH21 | putative inner membrane protein/IS5 transposase and trans‑activator |
| ? | NC_000913 | 1300698 = | 0 (0.000) | intergenic (+151/‑484) | insH21/oppA | IS5 transposase and trans‑activator/oligopeptide ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | = 4040816 | NA (NA) | 6 (0.060) | 6/156 | NT | 5.5% | intergenic (+180/+90) | rrfA/mobB | 5S ribosomal RNA/molybdopterin‑guanine dinucleotide biosynthesis adaptor protein |
| ? | NC_000913 | = 4040840 | 116 (1.090) | intergenic (+204/+66) | rrfA/mobB | 5S ribosomal RNA/molybdopterin‑guanine dinucleotide biosynthesis adaptor protein | |||||