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 | 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 | 70.7% | L330L (CTG→CTA) | lacI ← | DNA‑binding transcriptional repressor LacI |
| JC JC | 986,862 | IS1 (–) +9 bp | 31.1% | coding (113‑121/1089 nt) | ompF ← | outer membrane porin F |
| 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 | 3,535,548 | G→T | 7.3% | F107L (TTC→TTA) | 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 | 29.8% | 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 | 3423691–3424234 | 3424608–3424238 | 5–918 | 65 [61] | [63] 64 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 71275 | 120 (1.130) | 10014 (98.550) +GCTC |
157/168 | NT | 99.0% | intergenic (+10/‑76) | araC/yabI | DNA‑binding transcriptional dual regulator AraC/DedA family protein YabI |
| ? | NC_000913 | 366286 = | 102 (0.960) | coding (20/3075 nt) | lacZ | beta‑galactosidase | |||||
| * | ? | NC_000913 | 1207790 = | 59 (0.550) | 45 (0.520) | 38/144 | NT | 50.8% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 39 (0.450) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 61 (0.570) | 35 (0.400) | 31/144 | NT | 44.1% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 39 (0.450) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 97 (0.950) | 73/168 | 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 = | 119 (1.120) | 18 (0.190) | 17/158 | NT | 13.4% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 126 (1.320) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 4542690 | 121 (1.140) | 24 (0.250) | 21/158 | NT | 17.0% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 126 (1.320) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||