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 38 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 339,986 | 0 | G | A | 66.7% | 35.9 / 31.9 | 36 | R73Q (CGA→CAA) | yahH | putative uncharacterized protein YahH |
| * | NC_000913 | 339,979 | 0 | G | A | 61.1% | 27.1 / 30.1 | 36 | V71M (GTG→ATG) | yahH | putative uncharacterized protein YahH |
| * | NC_000913 | 3,054,894 | 0 | G | T | 40.0% | 78.8 / 29.5 | 75 | P184Q (CCA→CAA) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 3,054,886 | 0 | G | T | 38.7% | 93.9 / 30.2 | 76 | Q187K (CAA→AAA) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 4,136,467 | 0 | A | C | 37.0% | 64.1 / 14.9 | 48 | E120D (GAA→GAC) | yijE | cystine exporter |
| * | NC_000913 | 3,911,533 | 0 | C | A | 35.2% | 193.9 / 17.1 | 125 | intergenic (‑8/+306) | pstS/glmS | phosphate ABC transporter periplasmic binding protein/L‑glutamine‑‑D‑fructose‑6‑phosphate aminotransferase |
| * | NC_000913 | 2,477,265 | 0 | A | C | 34.9% | 133.7 / 27.2 | 83 | L122* (TTA→TGA) | dsdC | DNA‑binding transcriptional dual regulator DsdC |
| * | NC_000913 | 58,065 | 0 | C | A | 34.0% | 157.1 / 22.0 | 100 | P234P (CCC→CCA) | djlA | co‑chaperone protein DjlA |
| * | NC_000913 | 2,990,480 | 0 | C | A | 33.8% | 218.0 / 32.0 | 161 | intergenic (‑120/‑788) | yqeK/ygeG | protein YqeK/TPR repeat‑containing putative chaperone YgeG |
| * | NC_000913 | 4,296,191 | 0 | A | C | 33.3% | 17.8 / 18.1 | 27 | intergenic (+397/+245) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 339,992 | 0 | C | . | 31.4% | 71.7 / 46.0 | 35 | coding (224/321 nt) | yahH | putative uncharacterized protein YahH |
| * | NC_000913 | 834,674 | 0 | C | A | 31.3% | 146.7 / 17.0 | 83 | L535L (CTC→CTA) | dinG | ATP‑dependent DNA helicase DinG |
| * | NC_000913 | 847,955 | 0 | G | A | 30.6% | 151.3 / 43.0 | 109 | A17V (GCG→GTG) | glnH | L‑glutamine ABC transporter periplasmic binding protein |
| * | NC_000913 | 3,226,224 | 0 | G | T | 29.8% | 226.4 / 11.2 | 121 | intergenic (+53/‑10) | ebgC/ygjI | DUF386 domain‑containing evolved beta‑D‑galactosidase subunit beta/putative transporter YgjI |
| * | NC_000913 | 12,152 | 0 | G | T | 29.5% | 154.2 / 13.4 | 88 | intergenic (‑366/‑11) | yaaI/dnaK | DUF2541 domain‑containing protein YaaI/chaperone protein DnaK |
| * | NC_000913 | 4,427,822 | 0 | C | A | 29.3% | 311.0 / 12.2 | 133 | intergenic (‑400/+257) | yjfZ/ytfB | DUF2686 domain‑containing protein YjfZ/cell division protein YtfB |
| * | NC_000913 | 3,841,663 | 0 | G | A | 28.8% | 91.7 / 11.8 | 52 | A26V (GCG→GTG) | nepI | purine ribonucleoside exporter |
| * | NC_000913 | 2,365,840 | 0 | T | G | 28.5% | 193.8 / 18.5 | 130 | intergenic (‑220/‑70) | ais/arnB | putative lipopolysaccharide core heptose(II)‑phosphate phosphatase/UDP‑4‑amino‑4‑deoxy‑L‑arabinose aminotransferase |
| * | NC_000913 | 2,477,267 | 0 | T | C | 28.2% | 163.5 / 12.9 | 85 | A121A (GCA→GCG) | dsdC | DNA‑binding transcriptional dual regulator DsdC |
| * | NC_000913 | 1,922,815 | 0 | C | A | 28.0% | 186.0 / 20.7 | 107 | G52V (GGA→GTA) | pphA | phosphoprotein phosphatase 1 |
| 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 | = 2357730 | 120 (1.280) | 10 (0.120) | 10/518 | 5.3 | 8.9% | coding (827/900 nt) | rpnE | inactive recombination‑promoting nuclease‑like protein RpnE |
| ? | NC_000913 | 2357926 = | 100 (1.230) | intergenic (+123/+116) | rpnE/yfaU | inactive recombination‑promoting nuclease‑like protein RpnE/2‑keto‑3‑deoxy‑L‑rhamnonate aldolase | |||||
| * | ? | NC_000913 | = 2653419 | 75 (0.800) | 10 (0.120) | 9/548 | 5.9 | 13.3% | noncoding (37/100 nt) | timR | putative small regulatory RNA TimR |
| ? | NC_000913 | 2653746 = | 62 (0.720) | intergenic (‑291/‑109) | timR/ryfA | putative small regulatory RNA TimR/small regulatory RNA RyfA | |||||
| * | ? | NC_000913 | 781577 = | 56 (0.600) | 8 (0.090) +GAAG |
6/590 | 7.6 | 10.9% | noncoding (1/76 nt) | lysQ | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 77 (0.820) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | = 696741 | 42 (0.450) | 4 (0.060) | 3/442 | 7.7 | 9.4% | intergenic (‑1/+15) | metU/glnW | tRNA‑Met/tRNA‑Gln |
| ? | NC_000913 | 697135 = | 46 (0.660) | intergenic (‑2/+378) | metT/asnB | tRNA‑Met/asparagine synthetase B | |||||
| * | ? | NC_000913 | = 696506 | 0 (0.000) | 5 (0.060) +45 bp |
4/508 | 7.8 | 14.6% | intergenic (‑2/+36) | glnX/glnV | tRNA‑Gln/tRNA‑Gln |
| ? | NC_000913 | 697057 = | 69 (0.740) | noncoding (77/77 nt) | metT | tRNA‑Met | |||||
| * | ? | NC_000913 | = 4295870 | 73 (0.780) | 3 (0.040) | 3/520 | 8.6 | 4.8% | intergenic (+76/+566) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| ? | NC_000913 | 4296434 = | 56 (0.690) | intergenic (+640/+2) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO | |||||
| * | ? | NC_000913 | = 1376615 | 59 (0.630) | 3 (0.030) | 3/572 | 9.1 | 5.2% | coding (582/789 nt) | ycjR | 3‑dehydro‑D‑guloside 4‑epimerase |
| ? | NC_000913 | 1376985 = | 53 (0.590) | coding (154/1056 nt) | ycjS | D‑glucoside 3‑dehydrogenase | |||||