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 | 527,423 | C→A | A1388E (GCA→GAA) | rhsD → | protein RhsD |
| RA | 537,285 | C→A | L234M (CTG→ATG) | glxR → | tartronate semialdehyde reductase 2 |
| RA | 637,156 | G→T | Q155K (CAA→AAA) | ybdO ← | putative LysR family DNA‑binding transcriptional regulator YbdO |
| 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 |
| MC JC | 1,299,499 | Δ1,199 bp | insH21 | insH21 | |
| RA | 1,367,291 | C→A | G208W (GGG→TGG) | pspF ← | DNA‑binding transcriptional dual regulator PspF |
| 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 | 2,024,541 | G→T | V192F (GTC→TTC) | rcsA → | DNA‑binding transcriptional activator RcsA |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,185,174 | G→T | A43E (GCG→GAG) | thiM ← | hydroxyethylthiazole kinase |
| RA | 2,244,751 | C→A | intergenic (+5/+27) | yeiG → / ← cirA | S‑formylglutathione hydrolase/S‑lactoylglutathione hydrolase/ferric dihyroxybenzoylserine outer membrane transporter |
| RA | 2,256,841 | G→T | I165I (ATC→ATA) | psuT ← | putative pseudouridine transporter |
| RA | 2,339,065 | G→T | A119E (GCA→GAA) | gyrA ← | DNA gyrase subunit A |
| RA | 2,484,466 | C→A | I31I (ATC→ATA) | evgS → | sensory histidine kinase EvgS |
| RA | 2,795,043 | T→C | M264T (ATG→ACG) | gabP → | 4‑aminobutyrate:H(+) symporter |
| RA | 3,059,555 | C→A | pseudogene (57/231 nt) | yqfE ← | conserved protein YqfE |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,355,158 | C→A | P145Q (CCG→CAG) | gltB → | glutamate synthase subunit GltB |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| JC JC | 3,656,189 | IS5 (–) +4 bp | coding (101‑104/327 nt) | hdeB ← | periplasmic acid stress chaperone |
| RA | 3,801,792 | C→A | G70C (GGT→TGT) | waaJ ← | UDP‑glucose:(glucosyl)LPS alpha‑1,2‑glucosyltransferase |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 3,943,340 | C→T | noncoding (1533/1542 nt) | rrsC → | 16S ribosomal RNA |
| RA | 4,224,989 | C→T | R388C (CGT→TGT) | metH → | cobalamin‑dependent methionine synthase |
| 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 | 4,472,003 | G→T | G131G (GGC→GGA) | pyrB ← | aspartate carbamoyltransferase catalytic subunit |
| RA | 4,574,058 | G→T | intergenic (+127/‑77) | yjiT → / → yjiV | putative uncharacterized protein YjiT/putative uncharacterized protein YjiV |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 1196280 | 1211430 | 15151 | 17 [15] | [15] 16 | [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 | 3102950 | 3104051 | 1102 | 16 [15] | [15] 18 | [mutY] | [mutY] |
| * | * | ÷ | NC_000913 | 3423772–3424234 | 3424525–3424239 | 6–754 | 16 [15] | [13] 17 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| * | * | ÷ | NC_000913 | 3762355–3764074 | 3765194–3764077 | 4–2840 | 16 [15] | [15] 16 | rhsA | rhs element protein RhsA |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 3363001 = | 129 (1.780) | 121 (1.680) | 61/274 | 0.1 | 65.0% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 2 (0.030) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 76 (1.050) | 46/276 | 0.3 | 97.4% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 2 (0.030) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||