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 |
| MC JC | 257,908 | Δ776 bp | 100% | [crl] | [crl] | |
| RA | 633,735 | G→C | 5.8% | E50D (GAG→GAC) | ybdL → | methionine aminotransferase, PLP‑dependent |
| RA | 1,529,175 | T→C | 8.9% | pseudogene (1274/2037 nt) | rhsE → | pseudogene, Rhs family |
| RA | 1,529,180 | T→C | 8.8% | pseudogene (1279/2037 nt) | rhsE → | pseudogene, Rhs family |
| RA | 1,529,185 | C→T | 8.0% | pseudogene (1284/2037 nt) | rhsE → | pseudogene, Rhs family |
| RA | 1,529,203 | C→A | 10.1% | pseudogene (1302/2037 nt) | rhsE → | pseudogene, Rhs family |
| RA | 1,529,218 | C→T | 16.4% | pseudogene (1317/2037 nt) | rhsE → | pseudogene, Rhs family |
| RA | 1,877,629 | C→T | 10.9% | intergenic (‑97/‑86) | yoaF ← / → yeaP | DUF333 family outer membrane lipoprotein/diguanylate cyclase |
| RA | 1,894,506 | C→T | 6.2% | intergenic (+74/+46) | yoaC → / ← yoaH | DUF1889 family protein/UPF0181 family protein |
| MC JC | 1,978,503 | Δ776 bp | 100% | insB1–insA | insB1, insA | |
| 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 | 3,544,159 | A→G | 5.7% | I229T (ATC→ACC) | bioH ← | pimeloyl‑ACP methyl ester carboxylesterase |
| RA | 3,560,455:1 | +G | 94.7% | 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 | 3,688,287 | A→C | 14.7% | V296G (GTG→GGG) | bcsC ← | cellulose synthase subunit |
| RA | 3,815,809 | Δ1 bp | 7.1% | intergenic (‑41/+25) | pyrE ← / ← rph | orotate phosphoribosyltransferase/ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH |
| JC | 3,815,859 | Δ82 bp | 7.0% | [rph]–[rph] | [rph], [rph] | |
| RA | 4,037,225 | A→C | 8.7% | intergenic (+8/‑35) | ileT → / → alaT | tRNA‑Ile/tRNA‑Ala |
| RA | 4,037,226 | C→G | 9.1% | intergenic (+9/‑34) | ileT → / → alaT | tRNA‑Ile/tRNA‑Ala |
| RA | 4,037,227 | G→T | 9.6% | intergenic (+10/‑33) | ileT → / → alaT | tRNA‑Ile/tRNA‑Ala |
| RA | 4,123,175 | C→T | 6.1% | T55T (ACG→ACA) | ftsN ← | essential cell division protein |
| RA | 4,184,809 | G→T | 48.7% | G1189C (GGT→TGT) | rpoB → | RNA polymerase, beta subunit |
| RA | 4,188,572 | C→T | 10.6% | R1075C (CGT→TGT) | rpoC → | RNA polymerase, beta prime subunit |
| RA | 4,296,060 | C→T | 16.0% | intergenic (+266/+376) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,296,190 | A→G | 26.8% | intergenic (+396/+246) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,296,191 | A→C | 43.2% | intergenic (+397/+245) | 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 | 4,343,450 | Δ1 bp | 5.6% | coding (82/1422 nt) | melB → | melibiose:sodium symporter |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3423840–3424492 | 3424492 | 1–653 | 43 [40] | [42] 43 | [rrlD] | [rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 225468 = | 55 (0.520) | 8 (0.080) | 4/484 | NT | 11.3% | intergenic (+11/‑32) | ileV/alaV | tRNA‑Ile/tRNA‑Ala |
| ? | NC_000913 | 4037225 = | 73 (0.720) | intergenic (+8/‑35) | ileT/alaT | tRNA‑Ile/tRNA‑Ala | |||||
| * | ? | NC_000913 | 1207790 = | 64 (0.610) | 49 (0.500) | 42/470 | NT | 45.4% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 58 (0.590) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 65 (0.620) | 52 (0.530) | 37/470 | NT | 46.7% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 58 (0.590) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 46 (0.440) | 36/494 | 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 | |||||