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 | 139,433 | T→A | D598V (GAT→GTT) | gcd ← | quinoprotein glucose dehydrogenase |
| RA | 204,655 | C→T | L55L (CTG→TTG) | rnhB → | RNase HII |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 781,471 | C→G | intergenic (+27/‑106) | lysZ → / → lysQ | tRNA‑Lys/tRNA‑Lys |
| RA | 834,202 | A→G | D378G (GAC→GGC) | dinG → | ATP‑dependent DNA helicase DinG |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,321,134 | C→A | C84F (TGC→TTC) | trpD ← | anthranilate synthase subunit TrpD |
| RA | 1,548,086 | T→C | M229T (ATG→ACG) | fdnG → | formate dehydrogenase N subunit alpha |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| RA | 1,731,942 | C→A | T952T (ACC→ACA) | lhr → | putative ATP‑dependent helicase Lhr |
| 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 | 2,135,581 | G→T | V24V (GTC→GTA) | wzc ← | protein‑tyrosine kinase Wzc |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,407,208 | C→A | intergenic (‑567/‑353) | lrhA ← / → alaA | DNA‑binding transcriptional dual regulator LrhA/glutamate‑‑pyruvate aminotransferase AlaA |
| RA | 2,488,147 | G→T | A341D (GCC→GAC) | yfdE ← | acetyl‑CoA:oxalate CoA‑transferase |
| RA | 2,641,632 | A→G | I58T (ATC→ACC) | ispG ← | (E)‑4‑hydroxy‑3‑methylbut‑2‑enyl‑diphosphate synthase (flavodoxin) |
| RA | 2,824,433 | G→T | intergenic (‑87/+58) | pncC ← / ← mltB | NMN aminohydrolase/membrane‑bound lytic murein transglycosylase B |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,386,412 | G→T | R593S (CGC→AGC) | aaeB ← | aromatic carboxylic acid efflux pump subunit AaeB |
| RA | 3,543,860 | G→T | V232F (GTT→TTT) | rpnA → | recombination‑promoting nuclease RpnA |
| RA | 3,556,470 | G→T | P127Q (CCG→CAG) | rtcA ← | RNA 3'‑terminal phosphate cyclase |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,580,336 | C→A | R157L (CGC→CTC) | yhhX ← | putative oxidoreductase YhhX |
| RA | 3,580,996 | C→A | noncoding (21/90 nt) | ryhB ← | small regulatory RNA RyhB |
| RA | 3,688,254 | C→A | G307V (GGG→GTG) | bcsC ← | cellulose biosynthesis protein BcsC |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 3,867,114 | C→A | E103D (GAG→GAT) | ibpA ← | small heat shock protein IbpA |
| RA | 3,942,018 | G→T | noncoding (211/1542 nt) | rrsC → | 16S ribosomal RNA |
| RA | 4,031,174 | C→A | A5D (GCC→GAC) | pepQ → | Xaa‑Pro dipeptidase |
| 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 | 4,340,227 | C→A | A99S (GCC→TCC) | adiA ← | arginine decarboxylase, degradative |
| RA | 4,345,861 | G→T | A489E (GCG→GAG) | fumB ← | fumarase B |
| RA | 4,394,055 | G→T | L5I (CTC→ATC) | queG ← | epoxyqueuosine reductase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 2520959 | 2521091 | 133 | 42 [41] | [39] 42 | [valU]–[valX] | [valU],[valX] |
| * | * | ÷ | NC_000913 | 3102950 | 3104082 | 1133 | 42 [41] | [40] 42 | mutY | mutY |
| * | * | ÷ | NC_000913 | 3423746–3424234 | 3424545–3424238 | 5–800 | 42 [38] | [39] 46 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 165 (1.290) | 92/270 | 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 | 2101745 = | NA (NA) | 94 (0.710) | 53/278 | 0.9 | NA | intergenic (‑1/+150) | wbbL/insH‑7 | interrupted rhamnosyltransferase WbbL/IS5 transposase and trans‑activator |
| ? | NC_000913 | = 2290113 | NA (NA) | noncoding (1/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 3363001 = | 166 (1.260) | 188 (1.430) | 83/276 | 0.1 | 68.5% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 8 (0.060) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 154 (1.170) | 81/278 | 0.1 | 95.1% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 8 (0.060) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||