mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.27.1 revision 87c22d663cc3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| RA | 176,134 | C→T | T343I (ACC→ATC) | clcA → | H(+)/Cl(‑) exchange transporter |
| RA | 221,277 | G→A | I115I (ATC→ATT) | metI ← | DL‑methionine transporter subunit |
| MC JC | 257,908 | Δ776 bp | [crl] | [crl] | |
| RA | 268,810 | T→C | S51G (AGT→GGT) | ykfA ← | CP4‑6 prophage; putative GTP‑binding protein |
| RA | 291,529 | G→A | pseudogene (126/828 nt) | yagJ → | CP4‑6 prophage; uncharacterized protein;Phage or Prophage Related |
| RA | 300,196 | A→G | F247L (TTC→CTC) | paoC ← | PaoABC aldehyde oxidoreductase, Moco‑containing subunit |
| RA | 323,369 | G→A | V344V (GTG→GTA) | ykgF → | ferridoxin‑like LutB family protein; putative electron transport chain YkgEFG component |
| RA | 387,569 | T→C | L200P (CTC→CCC) | tauC → | taurine ABC transporter permease |
| RA | 527,078 | (G)6→7 | coding (3818/4281 nt) | rhsD → | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| RA | 609,147 | (C)7→8 | coding (1083/1113 nt) | insL1 → | IS186 transposase |
| RA | 709,028 | (A)5→4 | coding (695/1407 nt) | chiP → | chitoporin, uptake of chitosugars |
| RA | 882,192 | G→A | G181G (GGC→GGT) | deoR ← | deoxyribose‑5‑phosphate‑inducible deoxyribose operon transcriptional repressor; repressor of nupG and tsx |
| RA | 1,055,493 | G→A | A229V (GCA→GTA) | torS ← | hybrid sensory histidine kinase in two‑component regulatory system with TorR |
| RA | 1,089,069 | (T)7→8 | coding (789/2019 nt) | pgaB ← | poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine (PGA) N‑deacetylase outer membrane export lipoprotein |
| RA | 1,124,108 | (G)6→5 | intergenic (‑54/+10) | grxB ← / ← mdtH | glutaredoxin 2 (Grx2)/multidrug resistance efflux transporter conferring overexpression resistance to norfloxacin and enoxacin |
| RA | 1,415,000 | T→C | Q796R (CAG→CGG) | recE ← | Rac prophage; exonuclease VIII, 5' to 3' specific dsDNA exonuclease |
| RA | 1,529,218 | C→T | pseudogene (1317/2037 nt) | rhsE → | pseudogene, Rhs family |
| RA | 1,803,243 | G→A | pseudogene (150/426 nt) | arpB → | pseudogene, ankyrin repeats |
| JC JC | 1,879,829 | Δ1 bp :: IS186 (–) +6 bp :: Δ1 bp | coding (115‑120/360 nt) | yeaR ← | DUF1971 family protein, nitrate‑inducible |
| MC JC | 1,978,503 | Δ776 bp | insB1–insA | insB1, insA | |
| RA | 2,131,557 | G→A | R172C (CGC→TGC) | wcaC ← | putative glycosyl transferase |
| RA | 2,173,363 | Δ2 bp | intergenic (‑1/+1) | gatC ← / ← gatC | pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC/pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC |
| RA | 2,230,157 | G→A | L77L (CTG→TTG) | dusC ← | tRNA‑dihydrouridine synthase C |
| RA | 2,287,732 | G→A | pseudogene (1183/2525 nt) | yejO ← | pseudogene, autotransporter outer membrane homology;putative transport; Not classified; putative ATP‑binding component of a transport system |
| RA | 2,488,076 | C→T | A365T (GCG→ACG) | yfdE ← | acetyl‑CoA:oxalate CoA‑transferase |
| RA | 2,810,153 | Δ1 bp | coding (537/738 nt) | ygaZ → | putative L‑valine exporter, norvaline resistance protein |
| RA | 2,860,372 | G→A | G205R (GGA→AGA) | pphB → | serine/threonine‑specific protein phosphatase 2 |
| RA | 3,199,319 | G→A | A108V (GCA→GTA) | glnE ← | fused deadenylyltransferase/adenylyltransferase for glutamine synthetase |
| RA | 3,354,228 | (T)7→8 | intergenic (‑178/‑497) | yhcC ← / → gltB | putative Fe‑S oxidoreductase, Radical SAM superfamily protein/glutamate synthase, large subunit |
| RA | 3,560,455 | +G | intergenic (‑2/+1) | glpR ← / ← glpR | pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon/pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon |
| RA | 3,695,582 | T→C | pseudogene (404/753 nt) | bcsQ ← | involved in cellulose production, minD superfamily (pseudogene) |
| JC JC | 3,793,483 | IS2 (+) +5 bp | coding (197‑201/858 nt) | yibB ← | YibB family protein, function unknown |
| RA | 3,815,810 | Δ1 bp | intergenic (‑42/+24) | pyrE ← / ← rph | orotate phosphoribosyltransferase/ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH |
| RA | 3,932,937 | G→A | G541D (GGT→GAT) | kup → | potassium transporter |
| RA | 3,951,559 | +A | pseudogene (18/663 nt) | ilvG → | pseudogene, acetolactate synthase 2 large subunit, valine‑insensitive; acetolactate synthase II, large subunit, cryptic, interrupted |
| RA | 4,126,271 | T→C | T180T (ACA→ACG) | priA ← | Primosome factor n' (replication factor Y) |
| RA | 4,187,507 | A→C | N720H (AAC→CAC) | rpoC → | RNA polymerase, beta prime subunit |
| RA | 4,200,773 | A→G | S70G (AGC→GGC) | yjaH → | DUF1481 family putative lipoprotein |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,338,117 | (A)8→7 | intergenic (‑188/+137) | adiY ← / ← adiA | adi system transcriptional activator/arginine decarboxylase |
| RA | 4,367,579 | A→G | V250A (GTG→GCG) | aspA ← | aspartate ammonia‑lyase |
| JC | 4,397,624 | (GCTGGC)3→2 | coding (213‑218/1848 nt) | mutL → | methyl‑directed mismatch repair protein |
| RA | 4,547,814 | A→G | S25G (AGC→GGC) | fimF → | minor component of type 1 fimbriae |
| RA | 4,640,850 | C→T | intergenic (+308/‑92) | yjjY → / → yjtD | uncharacterized protein/putative methyltransferase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3423740–3424230 | 3424523–3424238 | 9–784 | 79 [76] | [76] 77 | [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) | 153 (1.150) | 126/590 | 0.0 | 100% | intergenic (+253/‑1684) | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein |
| ? | NC_000913 | 1300698 = | 0 (0.000) | intergenic (+1453/‑484) | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein | |||||