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 | 55,007 | C→A | G701G (GGG→GGT) | lptD ← | lipopolysaccharide assembly protein LptD |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 720,492 | T→C | intergenic (‑32/‑91) | speF ← / → ybfK | ornithine decarboxylase, degradative/uncharacterized protein YbfK |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,086,840 | C→A | C336F (TGC→TTC) | pgaC ← | poly‑N‑acetyl‑D‑glucosamine synthase subunit PgaC |
| RA | 1,220,454 | C→A | pseudogene (854/2648 nt) | ycgH → | putative transporter component, N‑terminal fragment |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| RA | 1,780,197 | C→A | A194E (GCG→GAG) | ydiQ → | putative electron transfer flavoprotein subunit YdiQ |
| 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 | 2,166,562 | G→T | A299S (GCA→TCA) | yegQ → | putative peptidase YegQ |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 3,068,851 | G→T | intergenic (‑43/+96) | argO ← / ← mscS | L‑arginine exporter/small conductance mechanosensitive channel MscS |
| RA | 3,118,565 | G→T | A183E (GCG→GAG) | yghJ ← | putative lipoprotein YghJ |
| RA | 3,269,368 | C→A | T318T (ACC→ACA) | yhaC → | uncharacterized protein YhaC |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,462,869 | G→T | E176* (GAG→TAG) | gspJ → | Type II secretion system protein GspJ |
| RA | 3,550,043 | C→A | A10S (GCG→TCG) | malQ ← | 4‑alpha‑glucanotransferase |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 3,911,319 | C→A | Q69H (CAG→CAT) | pstS ← | phosphate ABC transporter periplasmic binding protein |
| RA | 4,160,832 | G→T | intergenic (‑42/‑235) | sthA ← / → fabR | soluble pyridine nucleotide transhydrogenase/DNA‑binding transcriptional repressor FabR |
| 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 |
| JC JC | 4,640,748 | IS5 (+) +4 bp | intergenic (+206/‑191) | yjjY → / → yjtD | protein YjjY/putative rRNA methyltransferase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3102945 | 3104055 | 1111 | 10 [9] | [9] 11 | [mutY] | [mutY] |
| * | * | ÷ | NC_000913 | 3423755–3424528 | 3424528 | 1–774 | 10 [9] | [9] 11 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 18 (0.420) | 53 (1.390) | 38/246 | 0.1 | 83.5% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 5 (0.130) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 18 (0.420) | 26 (0.680) | 24/246 | 0.5 | 71.3% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 5 (0.130) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 42 (1.000) | 32/270 | 0.2 | 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 | 3363001 = | 77 (1.780) | 73 (1.700) | 47/276 | 0.0 | 64.8% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 3 (0.070) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 54 (1.250) | 38/278 | 0.1 | 94.7% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 3 (0.070) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||