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 | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 963,152 | C→A | G386G (GGC→GGA) | rpsA → | 30S ribosomal subunit protein S1 |
| RA | 1,378,900 | G→A | L339L (TTG→TTA) | ycjT → | kojibiose phosphorylase |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| RA | 1,798,834 | G→T | H37N (CAC→AAC) | pheS ← | phenylalanine‑‑tRNA ligase subunit alpha |
| JC JC | 1,879,829 | Δ1 bp :: IS186 (–) +6 bp :: Δ1 bp | coding (115‑120/360 nt) | yeaR ← | DUF1971 domain‑containing protein YeaR |
| RA | 1,891,299 | C→A | intergenic (‑32/+26) | tsaB ← / ← yoaA | N(6)‑L‑threonylcarbamoyladenine synthase, TsaB subunit/putative 5' to 3' DNA helicase implicated in DNA repair |
| RA | 1,913,560 | G→T | V419V (GTC→GTA) | prc ← | tail‑specific protease |
| 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 | 2,323,339 | C→A | intergenic (+88/‑108) | atoC → / → atoD | DNA‑binding transcriptional activator/ornithine decarboxylase inhibitor AtoC/acetyl‑CoA:acetoacetyl‑CoA transferase subunit alpha |
| RA | 2,473,155 | G→T | P31Q (CCG→CAG) | yfdO ← | CPS‑53 (KpLE1) prophage; putative defective phage replication protein O |
| RA | 2,937,463 | C→A | intergenic (+104/‑5) | fucI → / → fucK | L‑fucose isomerase/L‑fuculokinase |
| 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 | 3,857,150 | G→T | R419S (CGT→AGT) | yidJ ← | putative sulfatase/phosphatase |
| RA | 3,865,065 | C→A | A403A (GCG→GCT) | yidE ← | putative transport protein YidE |
| RA | 3,933,833 | C→A | A19D (GCC→GAC) | rbsA → | ribose ABC transporter ATP binding subunit |
| RA | 3,990,203 | T→C | P188P (CCA→CCG) | hemC ← | hydroxymethylbilane synthase |
| RA | 4,224,881 | G→T | E352* (GAA→TAA) | 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 | 4,316,106 | C→A | W371C (TGG→TGT) | phnM ← | RPnTP hydrolase |
| RA | 4,405,335 | G→T | D217Y (GAT→TAT) | purA → | adenylosuccinate synthetase |
| RA | 4,534,255 | G→T | intergenic (‑202/+175) | topAI ← / ← yjhZ | KpLE2 phage‑like element; toxin of the TopAI‑YjhQ toxin‑antitoxin system, TopA inhibitor/KpLE2 phage‑like element; putative acetyltransferase YjhZ |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3102978 | 3104043 | 1066 | 5 [3] | [0] 4 | [mutY] | [mutY] |
| * | * | ÷ | NC_000913 | 3423780–3424524 | 3424524 | 1–745 | 4 [3] | [3] 4 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 11 (0.400) | 48 (1.980) | 38/244 | 0.0 | 85.9% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 6 (0.250) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 11 (0.400) | 14 (0.580) | 13/244 | 0.7 | 64.0% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 6 (0.250) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 37 (1.390) | 30/268 | 0.1 | 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 = | 48 (1.750) | 35 (1.290) | 25/274 | 0.2 | 58.5% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 2 (0.070) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 36 (1.320) | 28/276 | 0.1 | 94.7% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 2 (0.070) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 4373285 | NA (NA) | 3 (0.130) | 3/226 | 2.6 | NA | noncoding (12/34 nt) | other | REP328b |
| ? | NC_000913 | = 4374507 | NA (NA) | noncoding (9/34 nt) | other | REP329a | |||||