mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.32.0b
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | ||||||
|---|---|---|---|---|---|---|
| evidence | position | mutation | freq | annotation | gene | description |
| RA | 628,974 | C→G | 58.0% | intergenic (‑41/‑68) | ybdH ← / → ybdL | putative oxidoreductase/methionine aminotransferase, PLP‑dependent |
| RA | 1,138,811 | T→C | 55.5% | D338G (GAC→GGC) | rne ← | fused ribonucleaseE: endoribonuclease/RNA‑binding protein/RNA degradosome binding protein |
| RA | 2,277,164 | A→G | 13.9% | L88P (CTG→CCG) | yejK ← | spermidine nucleoid‑associated protein |
| RA | 2,419,720 | T→C | 64.7% | D183G (GAT→GGT) | hisJ ← | histidine/lysine/arginine/ornithine transporter subunit |
| RA | 2,419,933 | G→T | 66.4% | A112D (GCC→GAC) | hisJ ← | histidine/lysine/arginine/ornithine transporter subunit |
| RA | 2,420,353 | A→G | 44.8% | intergenic (‑86/+135) | hisJ ← / ← argT | histidine/lysine/arginine/ornithine transporter subunit/lysine/arginine/ornithine transporter subunit |
| RA | 2,833,676 | T→C | 16.0% | L265P (CTG→CCG) | ascF → | fused cellobiose/arbutin/salicin‑specific PTS enzymes: IIB component/IC component |
| RA | 2,943,363 | G→A | 54.2% | V255M (GTG→ATG) | argA → | fused acetylglutamate kinase homolog (inactive)/amino acid N‑acetyltransferase |
| JC JC | 3,178,254 | IS5 (+) +4 bp | 33.3% | coding (56‑59/291 nt) | yqiC → | BMFP family putative fusogenic protein |
| RA | 3,178,277 | G→T | 60.8% | E27* (GAA→TAA) | yqiC → | BMFP family putative fusogenic protein |
| RA | 3,219,839 | C→G | 42.6% | R83G (CGT→GGT) | ygjI → | putative transporter |
| RA | 3,378,108:1 | +C | 72.2% | coding (47/471 nt) | argR → | l‑arginine‑responsive arginine metabolism regulon transcriptional regulator |
| RA | 4,048,586 | A→T | 43.9% | V18E (GTG→GAG) | glnG ← | fused DNA‑binding response regulator in two‑component regulatory system with GlnL: response regulator/sigma54 interaction protein |
| RA | 4,390,178 | A→C | 50.3% | Y25S (TAT→TCT) | hfq → | global sRNA chaperone; HF‑I, host factor for RNA phage Q beta replication |
| RA | 4,546,084 | G→T | 48.0% | H18Q (CAC→CAA) | yjiC ← | uncharacterized protein |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | = 287112 | NA (NA) | 10 (0.490) | 8/278 | NT | 62.5% | noncoding (1/768 nt) | IS1 | repeat region |
| ? | CP009273 | = 1973068 | 6 (0.290) | intergenic (‑614/‑166) | flhD/uspC | flagellar class II regulon transcriptional activator, with FlhC/universal stress protein | |||||
| * | ? | CP009273 | 360104 = | NA (NA) | 24 (1.170) | 19/278 | NT | 51.1% | intergenic (‑38/+557) | lacZ/lacI | pseudogene, truncated/DNA‑binding transcriptional repressor |
| ? | CP009273 | = 360286 | 23 (1.120) | intergenic (‑220/+375) | lacZ/lacI | pseudogene, truncated/DNA‑binding transcriptional repressor | |||||
| * | ? | CP009273 | 1203246 = | 7 (0.340) | 7 (0.390) | 7/246 | NT | 46.4% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | 1205075 = | 10 (0.550) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | 1973060 = | 7 (0.340) | 7 (0.340) | 7/278 | NT | 50.0% | intergenic (‑606/‑174) | flhD/uspC | flagellar class II regulon transcriptional activator, with FlhC/universal stress protein |
| ? | CP009273 | = 3577555 | NA (NA) | intergenic (+15/‑1) | insB1/yrhA | IS1 transposase B/pseudogene, interrupted by IS1E | |||||
| * | ? | CP009273 | = 2283592 | NA (NA) | 13 (0.630) | 13/278 | NT | 56.5% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | CP009273 | = 2400260 | 10 (0.490) | intergenic (‑140/‑780) | lrhA/alaA | transcriptional repressor of flagellar, motility and chemotaxis genes/valine‑pyruvate aminotransferase 2 | |||||
| * | ? | CP009273 | 2871349 = | 35 (1.700) | 3 (0.160) | 3/260 | NT | 8.6% | intergenic (+372/+579) | iap/ygbF | aminopeptidase in alkaline phosphatase isozyme conversion/CRISPR adaptation ssRNA endonuclease |
| ? | CP009273 | 2871404 = | 31 (1.610) | intergenic (+427/+524) | iap/ygbF | aminopeptidase in alkaline phosphatase isozyme conversion/CRISPR adaptation ssRNA endonuclease | |||||
| * | ? | CP009273 | 4532499 = | 9 (0.440) | 6 (0.310) | 6/260 | NT | 33.9% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | CP009273 | 4532813 = | 15 (0.780) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | CP009273 | = 4532507 | 9 (0.440) | 7 (0.360) | 7/260 | NT | 37.4% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | CP009273 | = 4532803 | 15 (0.780) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||