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 | annotation | gene | description |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 481,421 | C→A | A995S (GCT→TCT) | acrB ← | multidrug efflux pump RND permease AcrB |
| JC JC | 486,025 | IS1 (+) +9 bp | coding (265‑273/648 nt) | acrR → | DNA‑binding transcriptional repressor AcrR |
| RA | 803,662 | C→A | L54I (CTT→ATT) | ybhJ → | putative hydratase YbhJ |
| JC JC | 883,553 | IS30 (+) +2 bp | intergenic (‑165/‑119) | ybjG ← / → mdfA | undecaprenyl pyrophosphate phosphatase/multidrug efflux pump MdfA/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| RA | 1,619,399 | C→T | R94C (CGC→TGC) | marR → | DNA‑binding transcriptional repressor MarR |
| JC JC | 1,720,868 | IS5 (+) +4 bp | intergenic (‑44/‑154) | slyA ← / → ydhI | DNA‑binding transcriptional dual regulator SlyA/DUF1656 domain‑containing protein YdhI |
| RA | 1,905,761 | G→A | G25D (GGT→GAT) | mntP → | Mn(2(+)) exporter |
| MC JC | 1,978,503 | Δ776 bp | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| RA | 2,071,380 | A→G | noncoding (64/195 nt) | isrC → | small RNA IsrC |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| MC JC | 3,815,859 | Δ82 bp | [rph] | [rph] | |
| RA | 4,390,754 | G→T | A252A (GCC→GCA) | rsgA ← | ribosome small subunit‑dependent GTPase A |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 523876 | 523905 | 30 | 5 [4] | [4] 6 | rhsD | protein RhsD |
| * | * | ÷ | NC_000913 | 2806301 | 2815752 | 9452 | 53 [0] | [0] 55 | [proW]–[gshA] | [proW],proX,ygaY,ygaZ,ygaH,mprA,emrA,emrB,luxS,micA,[gshA] |
| * | * | ÷ | NC_000913 | 3423715–3424234 | 3424588–3424238 | 5–874 | 7 [4] | [0] 5 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| * | * | ÷ | NC_000913 | 4296120–4296378 | 4296392 | 15–273 | 7 [3] | [4] 7 | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 279163 = | NA (NA) | 217 (4.340) | 44/126 | 0.0 | 73.8% | noncoding (768/768 nt) | IS1 | repeat region |
| ? | NC_000913 | = 890745 | 77 (1.540) | coding (9/258 nt) | grxA | reduced glutaredoxin 1 | |||||
| * | ? | NC_000913 | 290634 = | NA (NA) | 53 (1.040) | 24/128 | 0.3 | 100% | noncoding (768/768 nt) | IS1 | repeat region |
| ? | NC_000913 | = 2806300 | 0 (0.000) | coding (291/1065 nt) | proW | glycine betaine ABC transporter membrane subunit ProW | |||||
| * | ? | NC_000913 | = 291401 | NA (NA) | 137 (2.700) | 43/128 | 0.0 | 70.3% | noncoding (1/768 nt) | IS1 | repeat region |
| ? | NC_000913 | 873161 = | 58 (1.140) | coding (183/2349 nt) | pdeI | putative c‑di‑GMP phosphodiesterase PdeI | |||||
| * | ? | NC_000913 | 1207790 = | 2 (0.040) | 59 (1.550) | 25/96 | 0.1 | 90.4% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 11 (0.290) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 2 (0.040) | 49 (1.290) | 18/96 | 0.3 | 88.7% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 11 (0.290) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 78 (1.640) | 37/120 | 0.0 | 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 | 2815753 = | 0 (0.000) | 55 (1.080) | 26/128 | 0.2 | 100% | coding (687/1557 nt) | gshA | glutamate‑‑cysteine ligase |
| ? | NC_000913 | 3583428 = | NA (NA) | noncoding (1/768 nt) | IS1 | repeat region | |||||