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 | 490,518 | C→A | D99Y (GAC→TAC) | priC ← | primosomal replication protein N'' |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,063,172 | G→T | P202T (CCG→ACG) | cbpA ← | curved DNA‑binding protein |
| RA | 1,198,918 | C→T | S75F (TCC→TTC) | lit → | e14 prophage; cell death peptidase Lit |
| RA | 1,377,672 | G→T | A281S (GCA→TCA) | ycjS → | putative oxidoreductase YcjS |
| RA | 1,423,989 | C→A | R70S (CGT→AGT) | trkG → | Rac prophage; K(+) transporter TrkG |
| RA | 1,549,842 | C→A | G814G (GGC→GGA) | fdnG → | formate dehydrogenase N subunit alpha |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| RA | 1,803,277 | G→T | pseudogene (184/1900 nt) | arpB → | putative ankyrin repeat protein B, N‑terminal fragment |
| 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 | 2,098,000 | G→T | S101Y (TCT→TAT) | wzzB ← | regulator of length of O‑antigen component of lipopolysaccharide chains |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,788,446 | A→G | pseudogene (2050/2253 nt) | ygaQ → | putative uncharacterized protein YgaQ |
| RA | 3,152,472 | C→A | G79G (GGC→GGA) | metC → | cystathionine beta‑lyase/L‑cysteine desulfhydrase |
| 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 | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 3,843,044 | G→T | A249E (GCG→GAG) | adeQ ← | adenine transporter |
| RA | 3,928,442 | G→T | Q388K (CAG→AAG) | viaA ← | protein ViaA |
| RA | 4,206,993 | G→T | F180L (TTC→TTA) | purH ← | bifunctional AICAR transformylase/IMP cyclohydrolase |
| 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 | 4,305,274 | G→T | H442N (CAT→AAT) | yjcS ← | alkyl sulfatase |
| RA | 4,505,167 | C→A | G370G (GGC→GGA) | yjhB → | putative sialic acid transporter |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 1097023–1097115 | 1097614 | 500–592 | 36 [35] | [32] 36 | [serX] | [serX] |
| * | * | ÷ | NC_000913 | 3102952 | 3104083 | 1132 | 37 [35] | [35] 37 | mutY | mutY |
| * | * | ÷ | NC_000913 | 3423749–3424234 | 3424533–3424239 | 6–785 | 37 [35] | [35] 36 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 73 (0.570) | 67 (0.590) | 40/244 | 1.3 | 51.8% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 60 (0.530) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 73 (0.570) | 31 (0.270) | 27/244 | 2.5 | 33.2% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 60 (0.530) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 123 (0.990) | 69/268 | 0.3 | 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 = | 217 (1.700) | 180 (1.420) | 73/274 | 0.2 | 62.4% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 2 (0.020) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 152 (1.190) | 75/276 | 0.2 | 96.8% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 5 (0.040) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||