mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 79 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 1,500,285 | 0 | A | C | 66.7% | 4.5 / 12.2 | 15 | V18G (GTA→GGA) | ydcO | BenE family transporter YdcO |
| * | NZ_CP009273 | 997,447 | 0 | T | G | 63.2% | 6.5 / 18.4 | 19 | V62G (GTA→GGA) | elfG | fimbrial protein |
| * | NZ_CP009273 | 2,678,659 | 0 | A | C | 61.5% | 8.6 / 10.6 | 13 | Y70D (TAT→GAT) | glyA | serine hydroxymethyltransferase |
| * | NZ_CP009273 | 3,941,183 | 0 | T | G | 60.6% | 25.0 / 41.2 | 33 | T49P (ACC→CCC) | hdfR | HTH‑type transcriptional regulator HdfR |
| * | NZ_CP009273 | 1,673,561 | 0 | A | C | 60.0% | 9.3 / 13.8 | 15 | Y293S (TAC→TCC) | ydgH | DUF1471 family protein YdgH |
| * | NZ_CP009273 | 2,458,992 | 0 | C | G | 60.0% | 8.4 / 26.2 | 20 | G71G (GGC→GGG) | yfdC | formate/nitrite transporter family protein |
| * | NZ_CP009273 | 822,963 | 0 | T | G | 58.3% | 3.6 / 28.8 | 24 | D492A (GAC→GCC) | ybhF | ATP‑binding cassette domain‑containing protein |
| * | NZ_CP009273 | 933,398 | 0 | A | C | 57.9% | 13.5 / 22.2 | 19 | T191P (ACC→CCC) | lolA | outer membrane lipoprotein chaperone LolA |
| * | NZ_CP009273 | 2,141,214 | 0 | T | G | 57.9% | 10.9 / 18.4 | 19 | G20G (GGT→GGG) | yegD | molecular chaperone |
| * | NZ_CP009273 | 5,159 | 0 | G | A | 57.1% | ‑1.6 / 14.2 | 14 | intergenic (+139/‑75) | thrC/yaaX | threonine synthase/DUF2502 domain‑containing protein |
| * | NZ_CP009273 | 1,500,295 | 0 | A | C | 57.1% | 6.2 / 12.7 | 14 | F15V (TTT→GTT) | ydcO | BenE family transporter YdcO |
| * | NZ_CP009273 | 4,594,161 | 0 | C | T | 56.5% | 14.6 / 54.1 | 46 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 2,153,677 | 0 | T | G | 56.2% | 10.7 / 15.1 | 17 | V604G (GTG→GGG) | mdtC | multidrug efflux RND transporter permease subunit MdtC |
| * | NZ_CP009273 | 3,751,028 | 0 | C | T | 56.2% | 0.7 / 33.9 | 32 | A54T (GCA→ACA) | yiaY | L‑threonine dehydrogenase |
| * | NZ_CP009273 | 4,501,865 | 0 | A | C | 56.2% | 21.4 / 37.6 | 32 | L123V (TTG→GTG) | fecD | Fe(3+) dicitrate ABC transporter permease subunit FecD |
| * | NZ_CP009273 | 3,214,118 | 0 | C | A | 56.0% | 7.7 / 37.0 | 25 | A422A (GCC→GCA) | ygjG | putrescine aminotransferase |
| * | NZ_CP009273 | 443,152 | 0 | T | A | 54.5% | 15.0 / 32.0 | 22 | K4* (AAG→TAG) | cyoE | heme o synthase |
| * | NZ_CP009273 | 822,955 | 0 | T | G | 54.5% | 15.7 / 26.5 | 22 | T495P (ACC→CCC) | ybhF | ATP‑binding cassette domain‑containing protein |
| * | NZ_CP009273 | 1,819,313 | 0 | G | A | 54.5% | 2.0 / 11.4 | 11 | intergenic (‑119/+84) | ves/spy | environmental stress‑induced protein Ves/ATP‑independent periplasmic protein‑refolding chaperone Spy |
| * | NZ_CP009273 | 2,371,314 | 0 | G | A | 53.6% | 10.0 / 34.0 | 28 | F475F (TTC→TTT) | menD | 2‑succinyl‑5‑enolpyruvyl‑6‑hydroxy‑3‑ cyclohexene‑1‑carboxylic‑acid synthase |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | = 1203261 | 26 (0.710) | 4 (0.140) | 4/134 | 2.1 | 17.1% | coding (305/630 nt) | BW25113_RS05990 | hypothetical protein |
| ? | NZ_CP009273 | = 1205058 | 18 (0.610) | coding (57/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | 3344114 = | 29 (0.790) | 4 (0.110) | 4/166 | 2.5 | 12.1% | coding (2271/2337 nt) | arcB | aerobic respiration two‑component sensor histidine kinase ArcB |
| ? | NZ_CP009273 | 3576788 = | NA (NA) | coding (391/417 nt) | BW25113_RS17825 | YrhA family protein | |||||