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 23 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 786,855 | 0 | A | C | 38.1% | 111.3 / 11.2 | 65 | G247G (GGT→GGG) | gpmA | 2,3‑bisphosphoglycerate‑dependent phosphoglycerate mutase |
| * | NC_000913 | 2,228,278 | 0 | G | C | 31.2% | 75.2 / 12.0 | 49 | intergenic (‑1008/‑704) | yohF/yohP | putative oxidoreductase YohF/putative membrane protein YohP |
| * | NC_000913 | 1,557,324 | 0 | T | G | 31.1% | 109.9 / 14.9 | 61 | T239P (ACC→CCC) | ddpF | putative D,D‑dipeptide ABC transporter ATP‑binding subunit DdpF |
| * | NC_000913 | 2,434,882 | 0 | T | G | 30.8% | 139.1 / 16.7 | 81 | Y252S (TAC→TCC) | truA | tRNA pseudouridine(38‑40) synthase |
| * | NC_000913 | 811,721 | 0 | T | G | 29.2% | 181.1 / 11.7 | 109 | V67G (GTG→GGG) | bioC | malonyl‑acyl carrier protein methyltransferase |
| * | NC_000913 | 4,296,268 | 0 | T | C | 28.1% | 33.0 / 20.2 | 34 | intergenic (+474/+168) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 4,256,061 | 0 | C | T | 28.0% | 73.7 / 13.8 | 50 | E136K (GAA→AAA) | plsB | glycerol‑3‑phosphate 1‑O‑acyltransferase |
| * | NC_000913 | 766,716 | 0 | G | T | 27.8% | 49.8 / 10.2 | 36 | A245S (GCG→TCG) | mngA | 2‑O‑alpha‑mannosyl‑D‑glycerate specific PTS enzyme II |
| * | NC_000913 | 4,457,105 | 0 | A | G | 27.3% | 190.8 / 13.6 | 91 | I441V (ATC→GTC) | mpl | UDP‑N‑acetylmuramate‑‑L‑alanyl‑gamma‑D‑glutamyl‑ meso‑2,6‑diaminoheptanedioate ligase |
| * | NC_000913 | 1,014,028 | 0 | A | G | 26.9% | 145.7 / 14.8 | 67 | D257G (GAT→GGT) | pqiB | intermembrane transport protein PqiB |
| * | NC_000913 | 2,434,861 | 0 | G | T | 26.7% | 123.9 / 13.3 | 75 | P259Q (CCA→CAA) | truA | tRNA pseudouridine(38‑40) synthase |
| * | NC_000913 | 1,265,482 | 0 | T | G | 26.4% | 162.9 / 14.7 | 88 | G157G (GGT→GGG) | prfA | peptide chain release factor RF1 |
| * | NC_000913 | 4,465,787 | 0 | G | A | 26.3% | 59.5 / 13.2 | 38 | R132C (CGC→TGC) | treB | trehalose‑specific PTS enzyme IIBC component |
| * | NC_000913 | 4,256,069 | 0 | G | C | 26.0% | 93.2 / 13.4 | 50 | P133R (CCG→CGG) | plsB | glycerol‑3‑phosphate 1‑O‑acyltransferase |
| * | NC_000913 | 1,825,061 | 0 | G | A | 25.6% | 88.7 / 11.3 | 43 | intergenic (‑124/+79) | ves/spy | HutD family protein Ves/ATP‑independent periplasmic chaperone |
| * | NC_000913 | 2,244,212 | 0 | C | T | 25.4% | 100.6 / 10.9 | 67 | G101G (GGC→GGT) | yeiG | S‑formylglutathione hydrolase/S‑lactoylglutathione hydrolase |
| * | NC_000913 | 3,556,207 | 0 | T | C | 23.7% | 145.4 / 10.6 | 60 | S215G (AGT→GGT) | rtcA | RNA 3'‑terminal phosphate cyclase |
| * | NC_000913 | 1,130,374 | 0 | C | T | 22.9% | 175.0 / 14.5 | 83 | A164T (GCG→ACG) | flgA | flagellar basal body P‑ring formation protein FlgA |
| * | NC_000913 | 2,434,863 | 0 | A | G | 22.9% | 145.2 / 11.8 | 74 | L258L (CTT→CTC) | truA | tRNA pseudouridine(38‑40) synthase |
| * | NC_000913 | 2,557,469 | 0 | T | G | 22.1% | 195.5 / 10.6 | 86 | Y404S (TAC→TCC) | eutB | ethanolamine ammonia‑lyase subunit alpha |
| 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 | = 696741 | 43 (0.560) | 5 (0.090) | 5/338 | 3.9 | 12.3% | intergenic (‑1/+15) | metU/glnW | tRNA‑Met/tRNA‑Gln |
| ? | NC_000913 | 697135 = | 42 (0.800) | intergenic (‑2/+378) | metT/asnB | tRNA‑Met/asparagine synthetase B | |||||
| * | ? | NC_000913 | = 918861 | 67 (0.870) | 3 (0.040) | 3/478 | 5.9 | 3.9% | coding (260/993 nt) | ybjX | DUF535 domain‑containing protein YbjX |
| ? | NC_000913 | 919612 = | 84 (1.120) | coding (378/1116 nt) | macA | ABC‑type tripartite efflux pump membrane fusion protein | |||||
| * | ? | NC_000913 | = 505957 | 74 (0.960) | 3 (0.040) | 3/494 | 6.0 | 3.9% | coding (1044/1653 nt) | ushA | 5'‑nucleotidase/UDP‑sugar hydrolase |
| ? | NC_000913 | 4265850 = | 72 (0.930) | coding (69/1080 nt) | alr | alanine racemase 1 | |||||
| * | ? | NC_000913 | = 1753 | 98 (1.270) | 3 (0.040) | 3/494 | 6.0 | 3.2% | coding (1417/2463 nt) | thrA | fused aspartate kinase/homoserine dehydrogenase 1 |
| ? | NC_000913 | 2406303 = | 82 (1.060) | coding (339/939 nt) | lrhA | DNA‑binding transcriptional dual regulator LrhA | |||||