mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | ||||||
|---|---|---|---|---|---|---|
| evidence | position | mutation | freq | annotation | gene | description |
| JC | 102,158 | +TGGTAATAT | 5.1% | coding (1394/1476 nt) | murC → | UDP‑N‑acetylmuramate:L‑alanine ligase |
| MC JC | 257,908 | Δ776 bp | 100% | [crl] | [crl] | |
| RA | 526,792 | A→C | 6.6% | S1178R (AGC→CGC) | rhsD → | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| RA | 526,796 | C→G | 6.7% | A1179G (GCG→GGG) | rhsD → | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| RA | 872,805 | C→T | 7.6% | intergenic (+4/‑174) | gsiD → / → yliE | glutathione ABC transporter permease/putative membrane‑anchored cyclic‑di‑GMP phosphodiesterase |
| RA | 1,529,175 | T→C | 8.5% | pseudogene (1274/2037 nt) | rhsE → | pseudogene, Rhs family |
| RA | 1,529,180 | T→C | 8.3% | pseudogene (1279/2037 nt) | rhsE → | pseudogene, Rhs family |
| RA | 1,529,185 | C→T | 8.6% | pseudogene (1284/2037 nt) | rhsE → | pseudogene, Rhs family |
| RA | 1,529,203 | C→A | 12.7% | pseudogene (1302/2037 nt) | rhsE → | pseudogene, Rhs family |
| RA | 1,529,218 | C→T | 16.9% | pseudogene (1317/2037 nt) | rhsE → | pseudogene, Rhs family |
| RA | 1,708,758 | G→C | 9.7% | E614Q (GAA→CAA) | rsxC → | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| MC JC | 1,978,503 | Δ776 bp | 100% | insB1–insA | insB1, insA | |
| RA | 2,054,976 | A→G | 5.5% | intergenic (+17/‑85) | shiA → / → amn | shikimate transporter/AMP nucleosidase |
| RA | 2,054,977 | T→G | 5.3% | intergenic (+18/‑84) | shiA → / → amn | shikimate transporter/AMP nucleosidase |
| RA | 2,054,978 | C→A | 5.2% | intergenic (+19/‑83) | shiA → / → amn | shikimate transporter/AMP nucleosidase |
| RA | 2,054,979 | C→T | 5.2% | intergenic (+20/‑82) | shiA → / → amn | shikimate transporter/AMP nucleosidase |
| RA | 2,173,361 | Δ2 bp | 100% | pseudogene (1‑2/442 nt) | gatC ← | pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC |
| RA | 3,505,145 | T→C | 5.7% | R292R (AGA→AGG) | yhfS ← | FNR‑regulated pyridoxal phosphate‑dependent aminotransferase family protein |
| RA | 3,560,455:1 | +G | 100% | 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 | 3,815,809 | Δ1 bp | 6.7% | intergenic (‑41/+25) | pyrE ← / ← rph | orotate phosphoribosyltransferase/ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH |
| RA | 3,815,822 | T→G | 6.7% | intergenic (‑54/+12) | pyrE ← / ← rph | orotate phosphoribosyltransferase/ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH |
| RA | 3,815,937 | C→A | 7.3% | pseudogene (613/669 nt) | rph ← | ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH |
| RA | 4,184,809 | G→T | 64.7% | G1189C (GGT→TGT) | rpoB → | RNA polymerase, beta subunit |
| RA | 4,296,190 | A→G | 20.6% | intergenic (+396/+246) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,296,191 | A→C | 23.6% | intergenic (+397/+245) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,296,268 | T→C | 10.4% | intergenic (+474/+168) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,296,380:1 | +CG | 100% | intergenic (+586/+56) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,566,266 | T→C | 5.3% | R327R (CGA→CGG) | yjiN ← | zinc‑type alcohol dehydrogenase‑like protein |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 84 (0.740) | 40 (0.380) | 31/462 | NT | 34.7% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 72 (0.680) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 84 (0.740) | 55 (0.520) | 39/462 | NT | 42.2% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 72 (0.680) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 38 (0.340) | 34/486 | NT | 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 | |||||
| * | ? | NC_000913 | 2054966 = | 113 (1.000) | 6 (0.060) | 5/474 | NT | 5.5% | intergenic (+7/‑95) | shiA/amn | shikimate transporter/AMP nucleosidase |
| ? | NC_000913 | 2054990 = | 99 (0.910) | intergenic (+31/‑71) | shiA/amn | shikimate transporter/AMP nucleosidase | |||||
| * | ? | NC_000913 | = 2515616 | NA (NA) | 7 (0.060) | 7/488 | NT | 5.4% | noncoding (1344/1345 nt) | IS186 | repeat region |
| ? | NC_000913 | 4543608 = | 122 (1.090) | coding (494/549 nt) | fimA | major type 1 subunit fimbrin (pilin) | |||||