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 39 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 4,208,132 | 0 | G | A | 68.4% | 188.6 / 134.2 | 154 | intergenic (‑600/‑15) | purH/rrsE | bifunctional AICAR transformylase/IMP cyclohydrolase/16S ribosomal RNA |
| * | NC_000913 | 3,943,452 | 0 | G | A | 40.8% | 22.4 / 60.2 | 49 | noncoding (18/76 nt) | gltU | tRNA‑Glu |
| * | NC_000913 | 2,613,312 | 0 | C | A | 39.8% | 144.1 / 17.8 | 98 | L471L (CTC→CTA) | hyfR | DNA‑binding transcriptional activator HyfR |
| * | NC_000913 | 3,054,937 | 0 | G | A | 36.8% | 176.7 / 27.3 | 106 | L170L (CTG→TTG) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 2,767,445 | 0 | C | A | 36.5% | 183.9 / 27.6 | 105 | intergenic (+90/‑265) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| * | NC_000913 | 58,065 | 0 | C | A | 35.9% | 169.7 / 22.5 | 118 | P234P (CCC→CCA) | djlA | co‑chaperone protein DjlA |
| * | NC_000913 | 3,911,533 | 0 | C | A | 35.8% | 246.5 / 32.7 | 151 | intergenic (‑8/+306) | pstS/glmS | phosphate ABC transporter periplasmic binding protein/L‑glutamine‑‑D‑fructose‑6‑phosphate aminotransferase |
| * | NC_000913 | 3,054,894 | 0 | G | T | 35.5% | 133.8 / 33.0 | 107 | P184Q (CCA→CAA) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 3,054,886 | 0 | G | T | 35.2% | 143.9 / 40.7 | 105 | Q187K (CAA→AAA) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 2,117,652 | 0 | G | T | 34.7% | 100.3 / 11.7 | 72 | L251L (CTC→CTA) | wcaK | colanic acid biosynthesis pyruvyl transferase WcaK |
| * | NC_000913 | 1,334,966 | 0 | A | C | 34.3% | 140.2 / 31.9 | 108 | intergenic (+137/‑182) | cysB/ymiA | DNA‑binding transcriptional dual regulator CysB/uncharacterized protein YmiA |
| * | NC_000913 | 2,767,443 | 0 | C | A | 33.7% | 189.8 / 18.7 | 105 | intergenic (+88/‑267) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| * | NC_000913 | 3,943,634 | 0 | A | G | 32.9% | 152.2 / 156.0 | 155 | intergenic (+124/‑70) | gltU/rrlC | tRNA‑Glu/23S ribosomal RNA |
| * | NC_000913 | 4,213,310 | 0 | G | T | 31.2% | 250.5 / 13.5 | 144 | G26V (GGA→GTA) | yjaA | stress response protein |
| * | NC_000913 | 2,477,265 | 0 | A | C | 30.5% | 158.9 / 24.0 | 82 | L122* (TTA→TGA) | dsdC | DNA‑binding transcriptional dual regulator DsdC |
| * | NC_000913 | 2,767,447 | 0 | C | A | 29.1% | 229.2 / 10.7 | 111 | intergenic (+92/‑263) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| * | NC_000913 | 4,136,467 | 0 | A | C | 29.1% | 168.2 / 13.5 | 88 | E120D (GAA→GAC) | yijE | cystine exporter |
| * | NC_000913 | 915,220 | 0 | G | C | 28.9% | 70.1 / 18.2 | 41 | intergenic (‑363/+132) | lysO/aqpZ | L‑lysine/thialysine exporter/water channel AqpZ |
| * | NC_000913 | 2,990,480 | 0 | C | A | 28.2% | 256.7 / 16.4 | 156 | intergenic (‑120/‑788) | yqeK/ygeG | protein YqeK/TPR repeat‑containing putative chaperone YgeG |
| * | NC_000913 | 2,427,716 | 0 | C | A | 28.1% | 239.1 / 12.0 | 114 | E26* (GAG→TAG) | argT | lysine/arginine/ornithine ABC transporter periplasmic binding protein |
| 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 | = 4606166 | 106 (1.120) | 9 (0.140) | 8/420 | 3.4 | 11.1% | intergenic (‑1/+34) | leuV/leuP | tRNA‑Leu/tRNA‑Leu |
| ? | NC_000913 | 4606403 = | 70 (1.050) | intergenic (‑2/+266) | leuQ/rsmC | tRNA‑Leu/16S rRNA m(2)G1207 methyltransferase | |||||
| * | ? | NC_000913 | 3270072 = | 73 (0.770) | 5 (0.060) +25 bp |
5/548 | 5.2 | 5.1% | intergenic (+470/+144) | yhaC/rnpB | uncharacterized protein YhaC/RNase P catalytic RNA component |
| ? | NC_000913 | 4137788 = | 129 (1.360) | intergenic (‑131/+144) | yijF/gldA | DUF1287 domain‑containing protein YijF/L‑1,2‑propanediol dehydrogenase/glycerol dehydrogenase | |||||
| * | ? | NC_000913 | 3270072 = | 73 (0.770) | 5 (0.050) +CAGATTGTTG |
5/578 | 5.4 | 5.7% | intergenic (+470/+144) | yhaC/rnpB | uncharacterized protein YhaC/RNase P catalytic RNA component |
| ? | NC_000913 | 3639193 = | 98 (1.030) | intergenic (+52/+192) | pitA/uspB | metal phosphate:H(+) symporter PitA/universal stress protein B | |||||
| * | ? | NC_000913 | 781577 = | 46 (0.490) | 7 (0.070) +GAAG |
5/590 | 5.4 | 10.1% | noncoding (1/76 nt) | lysQ | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 80 (0.840) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | = 780733 | 65 (0.690) | 4 (0.050) +21 bp |
4/556 | 5.7 | 6.3% | intergenic (+104/‑32) | lysT/valT | tRNA‑Lys/tRNA‑Val |
| ? | NC_000913 | 780740 = | 63 (0.660) | intergenic (+111/‑25) | lysT/valT | tRNA‑Lys/tRNA‑Val | |||||
| * | ? | NC_000913 | = 2357695 | 93 (0.980) | 4 (0.040) +C |
4/596 | 5.9 | 4.1% | coding (792/900 nt) | rpnE | inactive recombination‑promoting nuclease‑like protein RpnE |
| ? | NC_000913 | 2357892 = | 94 (0.990) | intergenic (+89/+150) | rpnE/yfaU | inactive recombination‑promoting nuclease‑like protein RpnE/2‑keto‑3‑deoxy‑L‑rhamnonate aldolase | |||||