mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 112 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 | 72.2% | 44.5 / 24.6 | 36 | R73Q (CGA→CAA) | yahH | putative uncharacterized protein YahH |
| * | NC_000913 | 339,979 | 0 | G | A | 69.7% | 36.0 / 22.1 | 33 | V71M (GTG→ATG) | yahH | putative uncharacterized protein YahH |
| * | NC_000913 | 3,356,772 | 0 | G | A | 61.1% | 71.8 / 138.8 | 114 | G683D (GGC→GAC) | gltB | glutamate synthase subunit GltB |
| * | NC_000913 | 1,263,982 | 0 | G | T | 58.7% | 32.4 / 98.1 | 75 | W90L (TGG→TTG) ‡ | hemA | glutamyl‑tRNA reductase |
| * | NC_000913 | 580,115 | 0 | C | T | 56.5% | 74.2 / 255.9 | 193 | intergenic (+29/+136) | ybcW/ylcI | uncharacterized protein YbcW/DUF3950 domain‑containing protein YlcI |
| * | NC_000913 | 3,160,243 | 0 | C | T | 56.3% | 55.2 / 198.8 | 154 | G302S (GGC→AGC) | ygiQ | radical SAM superfamily protein YgiQ |
| * | NC_000913 | 580,120 | 0 | C | T | 56.0% | 54.1 / 270.2 | 194 | intergenic (+34/+131) | ybcW/ylcI | uncharacterized protein YbcW/DUF3950 domain‑containing protein YlcI |
| * | NC_000913 | 580,119 | 0 | A | G | 55.4% | 81.1 / 249.9 | 193 | intergenic (+33/+132) | ybcW/ylcI | uncharacterized protein YbcW/DUF3950 domain‑containing protein YlcI |
| * | NC_000913 | 579,271 | 0 | G | A | 55.0% | 72.5 / inf | 249 | H108H (CAC→CAT) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,285 | 0 | T | C | 54.3% | 87.2 / inf | 258 | I104V (ATT→GTT) | ybcV | DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 578,571 | 0 | C | T | 53.9% | 25.7 / inf | 219 | intergenic (+3/+29) | rzpD/borD | putative prophage endopeptidase RzpD/prophage lipoprotein BorD |
| * | NC_000913 | 578,574 | 0 | A | C | 53.6% | 74.5 / 303.4 | 220 | intergenic (+6/+26) | rzpD/borD | putative prophage endopeptidase RzpD/prophage lipoprotein BorD |
| * | NC_000913 | 580,020 | 0 | G | A | 53.5% | 46.2 / 304.1 | 218 | R47R (AGG→AGA) | ybcW | uncharacterized protein YbcW |
| * | NC_000913 | 579,004 | 0 | C | T | 53.0% | 29.3 / inf | 248 | intergenic (‑111/+180) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 578,605 | 0 | T | G | 52.7% | 74.5 / inf | 224 | K97Q (AAA→CAA) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 579,146 | 0 | A | G | 52.0% | 57.1 / 316.6 | 221 | intergenic (‑253/+38) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 579,099 | 0 | A | . | 51.2% | inf / inf | 240 | intergenic (‑206/+85) | borD/ybcV | prophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV |
| * | NC_000913 | 578,831 | 0 | T | C | 51.2% | 42.8 / inf | 256 | T21T (ACA→ACG) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 578,729 | 0 | A | G | 51.1% | 25.4 / inf | 232 | A55A (GCT→GCC) | borD | prophage lipoprotein BorD |
| * | NC_000913 | 579,385 | 0 | A | G | 50.8% | 26.3 / inf | 301 | N70N (AAT→AAC) | ybcV | DUF1398 domain‑containing protein YbcV |
| Marginal new junction evidence (lowest skew 10 of 12 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 566774 | 93 (0.980) | 49 (0.520) | 15/594 | 4.2 | 34.9% | pseudogene (91/93 nt) | renD | protein RenD |
| ? | NC_000913 | 568036 = | 90 (0.950) | pseudogene (2/213 nt) | renD | protein RenD | |||||
| * | ? | NC_000913 | = 696741 | 59 (0.620) | 6 (0.090) | 6/442 | 5.5 | 11.5% | intergenic (‑1/+15) | metU/glnW | tRNA‑Met/tRNA‑Gln |
| ? | NC_000913 | 697135 = | 49 (0.700) | intergenic (‑2/+378) | metT/asnB | tRNA‑Met/asparagine synthetase B | |||||
| * | ? | NC_000913 | = 4606166 | 83 (0.870) | 6 (0.090) | 5/420 | 5.8 | 9.4% | intergenic (‑1/+34) | leuV/leuP | tRNA‑Leu/tRNA‑Leu |
| ? | NC_000913 | 4606403 = | 57 (0.850) | intergenic (‑2/+266) | leuQ/rsmC | tRNA‑Leu/16S rRNA m(2)G1207 methyltransferase | |||||
| * | ? | NC_000913 | = 2818275 | 41 (0.430) | 6 (0.090) | 5/440 | 6.0 | 11.6% | intergenic (‑1/+198) | argY/argV | tRNA‑Arg/tRNA‑Arg |
| ? | NC_000913 | 2818551 = | 61 (0.870) | intergenic (‑2/+2) | argV/serV | tRNA‑Arg/tRNA‑Ser | |||||
| * | ? | NC_000913 | = 2357702 | 93 (0.980) | 7 (0.070) +A |
7/596 | 6.5 | 6.8% | coding (799/900 nt) | rpnE | inactive recombination‑promoting nuclease‑like protein RpnE |
| ? | NC_000913 | 2357899 = | 100 (1.050) | intergenic (+96/+143) | rpnE/yfaU | inactive recombination‑promoting nuclease‑like protein RpnE/2‑keto‑3‑deoxy‑L‑rhamnonate aldolase | |||||
| * | ? | NC_000913 | = 3269899 | 125 (1.310) | 6 (0.070) | 6/562 | 6.6 | 4.5% | intergenic (+297/+317) | yhaC/rnpB | uncharacterized protein YhaC/RNase P catalytic RNA component |
| ? | NC_000913 | 3270239 = | 137 (1.530) | noncoding (354/377 nt) | rnpB | RNase P catalytic RNA component | |||||
| * | ? | NC_000913 | = 1286906 | 55 (0.580) | 7 (0.080) | 6/558 | 6.6 | 12.9% | coding (198/276 nt) | ychS | putative uncharacterized protein YchS |
| ? | NC_000913 | 1287557 = | 43 (0.480) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | NC_000913 | = 3469040 | 81 (0.850) | 4 (0.040) | 4/558 | 7.6 | 4.5% | coding (814/2694 nt) | chiA | endochitinase |
| ? | NC_000913 | 3469344 = | 96 (1.080) | coding (510/2694 nt) | chiA | endochitinase | |||||
| * | ? | NC_000913 | = 3708453 | 5 (0.050) | 4 (0.040) +T |
4/596 | 7.9 | 19.1% | intergenic (‑748/+163) | dppA/proK | dipeptide ABC transporter periplasmic binding protein/tRNA‑Pro |
| ? | NC_000913 | 3708623 = | 29 (0.300) | noncoding (70/77 nt) | proK | tRNA‑Pro | |||||
| * | ? | NC_000913 | 3270072 = | 73 (0.770) | 3 (0.030) +25 bp |
3/548 | 8.0 | 3.9% | intergenic (+470/+144) | yhaC/rnpB | uncharacterized protein YhaC/RNase P catalytic RNA component |
| ? | NC_000913 | 4137788 = | 89 (0.930) | intergenic (‑131/+144) | yijF/gldA | DUF1287 domain‑containing protein YijF/L‑1,2‑propanediol dehydrogenase/glycerol dehydrogenase | |||||