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 |
| Marginal read alignment evidence (highest frequency 20 of 136 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,151,689 | 0 | G | T | 58.6% | ‑3.3 / 15.4 | 29 | intergenic (+43/+22) | yegJ/yegK | uncharacterized protein/ser/thr phosphatase‑related protein |
| * | NC_000913 | 417,533 | 0 | T | G | 55.3% | 16.5 / 45.7 | 47 | V131G (GTG→GGG) | phoB | response regulator in two‑component regulatory system with PhoR |
| * | NC_000913 | 730,678 | 0 | C | T | 47.2% | 17.6 / 153.4 | 114 | R366W (CGG→TGG) | rhsC | Rhs protein with putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913 | 2,151,686 | 0 | G | T | 44.4% | 4.6 / 12.2 | 29 | intergenic (+40/+25) | yegJ/yegK | uncharacterized protein/ser/thr phosphatase‑related protein |
| * | NC_000913 | 3,745,397 | 0 | A | C | 39.7% | 105.2 / 15.3 | 82 | L198F (TTA→TTC) | yiaN | 2,3‑diketo‑L‑gulonate TRAP transporter large permease protein |
| * | NC_000913 | 3,844,219 | 0 | T | G | 38.4% | 175.3 / 21.5 | 86 | F86V (TTT→GTT) | adeD | cryptic adenine deaminase |
| * | NC_000913 | 3,862,670 | 0 | T | C | 38.2% | 10.7 / 20.4 | 48 | pseudogene (934/1617 nt) | glvC | pseudogene, arbutin specific enzyme IIC component of PTS;enzyme; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system, arbutin‑like IIB component; PTS system, arbutin‑like IIC component |
| * | NC_000913 | 811,721 | 0 | T | G | 38.2% | 157.5 / 13.8 | 89 | V67G (GTG→GGG) | bioC | malonyl‑ACP O‑methyltransferase, SAM‑dependent |
| * | NC_000913 | 3,862,664 | 0 | C | G | 35.7% | 25.1 / 18.7 | 43 | pseudogene (940/1617 nt) | glvC | pseudogene, arbutin specific enzyme IIC component of PTS;enzyme; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system, arbutin‑like IIB component; PTS system, arbutin‑like IIC component |
| * | NC_000913 | 433,634 | 0 | T | G | 35.2% | 82.2 / 23.4 | 91 | G60G (GGT→GGG) | ribD | fused diaminohydroxyphosphoribosylaminopyrimidine deaminase and 5‑amino‑6‑(5‑phosphoribosylamino) uracil reductase |
| * | NC_000913 | 433,649 | 0 | T | G | 34.9% | 60.8 / 15.6 | 87 | G65G (GGT→GGG) | ribD | fused diaminohydroxyphosphoribosylaminopyrimidine deaminase and 5‑amino‑6‑(5‑phosphoribosylamino) uracil reductase |
| * | NC_000913 | 3,862,677 | 0 | G | A | 34.2% | 8.2 / 17.9 | 47 | pseudogene (927/1617 nt) | glvC | pseudogene, arbutin specific enzyme IIC component of PTS;enzyme; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system, arbutin‑like IIB component; PTS system, arbutin‑like IIC component |
| * | NC_000913 | 753,125 | 0 | T | A | 33.3% | 109.7 / 30.8 | 57 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial‑like adhesin protein/citrate synthase |
| * | NC_000913 | 4,201,278 | 0 | A | C | 30.1% | 160.5 / 12.7 | 73 | G137G (GGT→GGG) | zraP | Zn‑dependent periplasmic chaperone |
| * | NC_000913 | 3,782,917 | 0 | G | A | 30.0% | 47.4 / 12.4 | 41 | L249L (CTG→TTG) | gpsA | glycerol‑3‑phosphate dehydrogenase (NAD+) |
| * | NC_000913 | 4,449,045 | 0 | T | G | 29.7% | 243.9 / 39.2 | 118 | intergenic (+3/+77) | chpB/ppa | toxin of the ChpB‑ChpS toxin‑antitoxin system/inorganic pyrophosphatase |
| * | NC_000913 | 2,151,710 | 0 | C | A | 29.4% | 105.9 / 13.7 | 51 | intergenic (+64/+1) | yegJ/yegK | uncharacterized protein/ser/thr phosphatase‑related protein |
| * | NC_000913 | 3,665,702 | 0 | C | A | 29.4% | 177.8 / 18.2 | 68 | A37S (GCG→TCG) | gadX | acid resistance regulon transcriptional activator; autoactivator |
| * | NC_000913 | 4,296,060 | 0 | C | T | 29.3% | 272.8 / 168.3 | 188 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 762,485 | 0 | A | C | 28.2% | 202.2 / 12.0 | 85 | T322P (ACC→CCC) | sucB | dihydrolipoyltranssuccinase |
| 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 | = 2518117 | 153 (0.880) | 6 (0.040) +22 bp |
6/314 | 7.9 | 4.3% | intergenic (‑1/+39) | alaX/alaW | tRNA‑Ala/tRNA‑Ala |
| ? | NC_000913 | = 3427077 | NA (NA) | noncoding (76/77 nt) | ileU | tRNA‑Ile | |||||
| * | ? | NC_000913 | = 2518231 | 189 (1.090) | 4 (0.030) +23 bp |
4/312 | 8.8 | 2.4% | noncoding (1/76 nt) | alaW | tRNA‑Ala |
| ? | NC_000913 | = 3427077 | NA (NA) | noncoding (76/77 nt) | ileU | tRNA‑Ile | |||||
| * | ? | NC_000913 | 225456 = | 56 (0.320) | 6 (0.040) +22 bp |
4/314 | 8.9 | 6.1% | noncoding (76/77 nt) | ileV | tRNA‑Ile |
| ? | NC_000913 | = 2518117 | 153 (0.880) | intergenic (‑1/+39) | alaX/alaW | tRNA‑Ala/tRNA‑Ala | |||||
| * | ? | NC_000913 | = 1996057 | 136 (0.780) | 5 (0.030) | 4/334 | 9.1 | 3.7% | intergenic (+15/+53) | yecF/sdiA | DUF2594 family protein/quorum‑sensing transcriptional activator |
| ? | NC_000913 | = 1996068 | 131 (0.810) | intergenic (+26/+42) | yecF/sdiA | DUF2594 family protein/quorum‑sensing transcriptional activator | |||||
| * | ? | NC_000913 | 3423613 = | 128 (0.740) | 4 (0.020) | 4/344 | 9.3 | 3.2% | noncoding (43/76 nt) | thrV | tRNA‑Thr |
| ? | NC_000913 | 3423630 = | 118 (0.710) | noncoding (26/76 nt) | thrV | tRNA‑Thr | |||||