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 |
| RA | 170,124 | C→A | A116E (GCG→GAG) | fhuC → | iron(III) hydroxamate ABC transporter ATP binding subunit |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 344,101 | G→T | intergenic (+168/‑75) | yahK → / → yahL | aldehyde reductase, NADPH‑dependent/uncharacterized protein YahL |
| RA | 492,598 | C→A | R169R (CGC→CGA) R169R (CGC→CGA) |
dnaX → dnaX → |
DNA polymerase III subunit tau DNA polymerase III subunit tau |
| JC JC | 523,084 | IS5 (+) +4 bp | intergenic (+254/‑174) | ybbP → / → rhsD | putative ABC transporter membrane subunit YbbP/protein RhsD |
| JC | 548,472 | +AGGG | coding (116/1260 nt) | ylbE → | DUF1116 domain‑containing protein YlbE |
| RA | 553,788 | A→G | D51D (GAT→GAC) | lpxH ← | UDP‑2,3‑diacylglucosamine diphosphatase |
| RA | 658,216 | C→A | pseudogene (186/788 nt) | ybeM → | deamidated glutathione amidase, N‑terminal fragment |
| RA | 733,974 | A→G | T67A (ACT→GCT) | ybfB → | uncharacterized protein YbfB |
| RA | 766,659 | G→T | G226C (GGC→TGC) | mngA → | 2‑O‑alpha‑mannosyl‑D‑glycerate specific PTS enzyme II |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,196,220 | C→T | H366H (CAC→CAT) | icd → | isocitrate dehydrogenase |
| RA | 1,196,232 | C→T | T370T (ACC→ACT) | icd → | isocitrate dehydrogenase |
| RA | 1,196,245 | T→C | L375M (TTA→CTG) | icd → | isocitrate dehydrogenase |
| RA | 1,196,247 | A→G | L375M (TTA→CTG) | icd → | isocitrate dehydrogenase |
| RA | 1,196,277 | C→T | N385N (AAC→AAT) | icd → | isocitrate dehydrogenase |
| RA | 1,196,280 | G→C | A386A (GCG→GCC) | icd → | isocitrate dehydrogenase |
| RA | 1,196,283 | A→G | K387K (AAA→AAG) | icd → | isocitrate dehydrogenase |
| MC JC | 1,299,499 | Δ1,199 bp | insH21 | insH21 | |
| RA | 1,389,688 | T→G | G253G (GGT→GGG) | ycjG → | L‑Ala‑D/L‑Glu epimerase |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| JC JC | 1,879,829 | Δ1 bp :: IS186 (–) +6 bp :: Δ1 bp | coding (115‑120/360 nt) | yeaR ← | DUF1971 domain‑containing protein YeaR |
| MC JC | 1,978,503 | Δ776 bp | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,339,065 | G→C | A119G (GCA→GGA) | gyrA ← | DNA gyrase subunit A |
| RA | 2,512,652 | G→T | L19I (CTC→ATC) | mntH ← | Mn(2(+))/Fe(2(+)): H(+) symporter MntH |
| RA | 2,758,577 | G→T | N8K (AAC→AAA) | yfjH ← | CP4‑57 prophage; protein YfjH |
| RA | 3,120,251 | C→A | V343V (GTG→GTT) | glcA ← | glycolate/lactate:H(+) symporter GlcA |
| RA | 3,204,045 | G→T | G29G (GGC→GGA) | bacA ← | undecaprenyl pyrophosphate phosphatase |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,623,761 | G→T | L121L (CTG→CTT) | yhhH → | PF15631 family protein YhhH |
| RA | 3,642,135 | C→A | A425D (GCT→GAT) | dtpB → | dipeptide/tripeptide:H(+) symporter DtpB |
| RA | 3,778,459 | T→C | V354A (GTC→GCC) | lldP → | lactate/glycolate:H(+) symporter LldP |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 4,261,710 | C→A | S14R (AGC→AGA) | dusA → | tRNA‑dihydrouridine synthase A |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,381,952 | C→A | E123* (GAG→TAG) | frdA ← | fumarate reductase flavoprotein subunit |
| RA | 4,423,288 | C→A | A148E (GCG→GAG) | ulaE → | L‑ribulose‑5‑phosphate 3‑epimerase UlaE |
| RA | 4,627,818 | (A)5→4 | coding (504/1233 nt) | nadR → | DNA‑binding transcriptional repressor/NMN adenylyltransferase NadR |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 1196289 | 1211428 | 15140 | 13 [11] | [9] 12 | [icd]–[icdC] | [icd],ymfD,ymfE,lit,intE,xisE,ymfH,ymfI,ymfJ,ymfK,ymfT,ymfL,ymfM,oweE,ymfN,aaaE,ymfR,beeE,jayE,ymfQ,ycfK,tfaP,tfaE,stfE,pinE,mcrA,[icdC] |
| * | * | ÷ | NC_000913 | 2518104 | 2518178 | 75 | 12 [11] | [11] 12 | [alaX]–[alaW] | [alaX],[alaW] |
| * | * | ÷ | NC_000913 | 3102986 | 3104051 | 1066 | 12 [10] | [11] 13 | [mutY] | [mutY] |
| * | * | ÷ | NC_000913 | 3423782–3424234 | 3424525–3424238 | 5–744 | 12 [10] | [10] 14 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 3363001 = | 60 (1.110) | 59 (1.100) | 40/274 | 0.2 | 66.1% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 1 (0.020) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 61 (1.130) | 49/276 | 0.1 | 96.8% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 2 (0.040) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||