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 | 70,289 | G→T | 76.9% | intergenic (‑241/‑98) | araB ← / → araC | ribulokinase/DNA‑binding transcriptional dual regulator AraC |
| RA | 70,371 | T→C | 75.7% | intergenic (‑323/‑16) | araB ← / → araC | ribulokinase/DNA‑binding transcriptional dual regulator AraC |
| RA | 70,434 | C→T | 75.2% | N16N (AAC→AAT) | araC → | DNA‑binding transcriptional dual regulator AraC |
| RA | 70,581 | C→T | 79.0% | V65V (GTC→GTT) | araC → | DNA‑binding transcriptional dual regulator AraC |
| RA | 70,740 | T→G | 73.6% | G118G (GGT→GGG) | araC → | DNA‑binding transcriptional dual regulator AraC |
| RA | 71,079 | C→T | 76.3% | R231R (CGC→CGT) | araC → | DNA‑binding transcriptional dual regulator AraC |
| RA | 71,082 | T→C | 75.8% | I232I (ATT→ATC) | araC → | DNA‑binding transcriptional dual regulator AraC |
| RA | 71,085 | T→C | 74.2% | S233S (AGT→AGC) | araC → | DNA‑binding transcriptional dual regulator AraC |
| RA | 71,109 | T→C | 74.3% | T241T (ACT→ACC) | araC → | DNA‑binding transcriptional dual regulator AraC |
| RA | 71,175 | A→G | 74.4% | R263R (CGA→CGG) | araC → | DNA‑binding transcriptional dual regulator AraC |
| RA | 71,214 | T→C | 78.6% | F276F (TTT→TTC) | araC → | DNA‑binding transcriptional dual regulator AraC |
| RA | 71,272 | A→C | 76.9% | 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 | 75.5% | D6N (GAT→AAT) | lacZ ← | beta‑galactosidase |
| RA | 366,300 | Δ1 bp | 73.2% | coding (6/3075 nt) | lacZ ← | beta‑galactosidase |
| 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 | 2,867,169 | A→T | 42.8% | I128N (ATC→AAC) | rpoS ← | RNA polymerase, sigma S (sigma 38) factor |
| RA | 3,560,455:1 | +G | 100% | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 4,235,869 | G→T | 31.8% | intergenic (+462/‑37) | pgi → / → yjbE | glucose‑6‑phosphate isomerase/uncharacterized protein YjbE |
| RA | 4,296,060 | C→T | 30.2% | 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 | 3423697–3424234 | 3424611–3424238 | 5–915 | 84 [79] | [80] 81 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 71275 | 124 (1.020) | 397 (3.420) +GCTC |
136/168 | NT | 76.5% | intergenic (+10/‑76) | araC/yabI | DNA‑binding transcriptional dual regulator AraC/DedA family protein YabI |
| ? | NC_000913 | 366286 = | 131 (1.080) | coding (20/3075 nt) | lacZ | beta‑galactosidase | |||||
| * | ? | NC_000913 | 1207790 = | 65 (0.530) | 54 (0.540) | 39/144 | NT | 50.9% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 51 (0.510) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 69 (0.570) | 46 (0.460) | 38/144 | NT | 46.2% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 51 (0.510) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 117 (1.010) | 78/168 | 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 | 4542682 = | 149 (1.220) | 9 (0.080) | 9/158 | NT | 6.7% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 118 (1.080) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 4542690 | 154 (1.260) | 21 (0.190) | 18/158 | NT | 14.1% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 118 (1.080) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||