mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 25 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 4,296,268 | 0 | T | C | 34.3% | 25.6 / 27.4 | 35 | intergenic (+474/+168) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 3,743,669 | 0 | G | A | 31.7% | 67.3 / 13.1 | 41 | E313K (GAA→AAA) | yiaK | 2,3‑diketo‑L‑gulonate reductase |
| * | NC_000913 | 1,658,167 | 0 | G | T | 31.4% | 79.2 / 15.2 | 52 | L33F (TTG→TTT) | ynfE | putative selenate reductase YnfE |
| * | NC_000913 | 4,604,344 | 0 | C | T | 30.8% | 55.5 / 16.0 | 40 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 3,135,781 | 0 | G | T | 30.0% | 82.3 / 14.4 | 51 | R197R (CGC→CGA) | pitB | metal phosphate:H(+) symporter PitB |
| * | NC_000913 | 3,206,435 | 0 | C | T | 30.0% | 57.5 / 10.2 | 40 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 2,833,567 | 0 | T | G | 29.9% | 185.0 / 13.1 | 97 | G364G (GGT→GGG) | norV | anaerobic nitric oxide reductase flavorubredoxin |
| * | NC_000913 | 1,684,736 | 0 | A | C | 29.2% | 76.1 / 10.4 | 49 | T160P (ACC→CCC) | tus | DNA replication terminus site‑binding protein |
| * | NC_000913 | 1,174,605 | 0 | T | C | 28.4% | 177.9 / 14.0 | 81 | G187G (GGA→GGG) | ycfT | inner membrane protein YcfT |
| * | NC_000913 | 4,056,115 | 0 | A | C | 28.2% | 134.9 / 10.5 | 72 | G75G (GGT→GGG) | glnL | protein histidine kinase NtrB |
| * | NC_000913 | 2,434,882 | 0 | T | G | 27.6% | 156.0 / 11.8 | 77 | Y252S (TAC→TCC) | truA | tRNA pseudouridine(38‑40) synthase |
| * | NC_000913 | 4,332,791 | 0 | A | C | 27.3% | 163.1 / 15.7 | 77 | V161G (GTG→GGG) | basS | sensor histidine kinase BasS |
| * | NC_000913 | 1,435,727 | 0 | G | A | 27.1% | 99.9 / 17.2 | 49 | intergenic (‑108/+33) | uspF/ompN | universal stress protein F/outer membrane porin N |
| * | NC_000913 | 4,004,132 | 0 | G | A | 26.0% | 101.4 / 10.0 | 51 | A16V (GCT→GTT) | rarD | putative transporter RarD |
| * | NC_000913 | 2,745,089 | 0 | A | C | 25.0% | 173.3 / 12.3 | 81 | V84G (GTG→GGG) | trmD | tRNA m(1)G37 methyltransferase |
| * | NC_000913 | 4,275,957 | 0 | A | G | 25.0% | 110.3 / 10.2 | 53 | S163G (AGT→GGT) | pdeC | c‑di‑GMP phosphodiesterase PdeC |
| * | NC_000913 | 2,185,199 | 0 | T | G | 24.3% | 240.8 / 19.8 | 116 | T35P (ACC→CCC) | thiM | hydroxyethylthiazole kinase |
| * | NC_000913 | 2,878,947 | 0 | C | T | 23.8% | 116.0 / 13.2 | 63 | E276K (GAA→AAA) | cas1 | multifunctional nuclease Cas1 |
| * | NC_000913 | 1,026,440 | 0 | T | G | 23.7% | 200.1 / 10.1 | 77 | V657G (GTA→GGA) | helD | DNA helicase IV |
| * | NC_000913 | 2,337,723 | 0 | A | C | 23.6% | 255.7 / 14.1 | 107 | G566G (GGT→GGG) | gyrA | DNA gyrase subunit A |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1411899 = | 59 (0.750) | 4 (0.060) | 4/442 | 4.8 | 8.4% | coding (50/936 nt) | ttcA | tRNA cytosine(32) 2‑sulfurtransferase TtcA |
| ? | NC_000913 | = 1434958 | 34 (0.480) | intergenic (‑552/+227) | ynaM/uspF | protein YnaM/universal stress protein F | |||||
| * | ? | NC_000913 | = 552744 | 107 (1.360) | 3 (0.040) | 3/488 | 5.5 | 3.9% | coding (357/510 nt) | purE | N(5)‑carboxyaminoimidazole ribonucleotide mutase |
| ? | NC_000913 | 1762399 = | 44 (0.570) | coding (114/747 nt) | sufC | Fe‑S cluster scaffold complex subunit SufC | |||||