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 24 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,304,798 | 0 | T | C | 37.5% | 20.6 / 10.6 | 33 | intergenic (+405/+310) | eco/mqo | serine protease inhibitor ecotin/malate:quinone oxidoreductase |
| * | NC_000913 | 4,429,984 | 0 | T | G | 32.1% | 78.6 / 12.0 | 57 | L41V (TTG→GTG) | cycA | D‑serine/alanine/glycine/:H(+)symporter |
| * | NC_000913 | 4,027,233 | 0 | T | A | 31.7% | 51.9 / 14.6 | 41 | intergenic (+5/+376) | fre/fadA | NAD(P)H‑flavin reductase/3‑ketoacyl‑CoA thiolase |
| * | NC_000913 | 2,828,506 | 0 | T | G | 31.2% | 59.4 / 18.7 | 65 | V257G (GTG→GGG) | srlD | sorbitol‑6‑phosphate 2‑dehydrogenase |
| * | NC_000913 | 1,346,653 | 0 | C | A | 30.6% | 36.7 / 11.3 | 36 | L30F (TTG→TTT) | pdeR | cyclic di‑GMP phosphodiesterase PdeR |
| * | NC_000913 | 4,126,210 | 0 | T | G | 30.4% | 154.8 / 18.4 | 93 | T201P (ACC→CCC) | priA | primosomal protein N' |
| * | NC_000913 | 1,797,853 | 0 | T | C | 30.0% | 87.6 / 10.7 | 51 | E31G (GAA→GGA) | pheT | phenylalanine‑‑tRNA ligase subunit beta |
| * | NC_000913 | 3,158,393 | 0 | G | A | 29.4% | 56.4 / 10.2 | 34 | E248E (GAG→GAA) | yqhG | DUF3828 domain‑containing protein YqhG |
| * | NC_000913 | 3,895,556 | 0 | T | C | 28.9% | 163.5 / 17.7 | 99 | M352V (ATG→GTG) | adeP | adenine:H(+) symporter |
| * | NC_000913 | 266,049 | 0 | A | C | 28.8% | 70.3 / 11.6 | 52 | G13G (GGT→GGG) | ykfB | protein YkfB |
| * | NC_000913 | 3,930,718 | 0 | T | G | 27.9% | 94.4 / 12.2 | 64 | T126P (ACC→CCC) | ravA | regulatory ATPase RavA |
| * | NC_000913 | 2,551,293 | 0 | T | A | 27.7% | 97.1 / 14.9 | 48 | Y145F (TAT→TTT) | yfeZ | putative inner membrane protein |
| * | NC_000913 | 119,396 | 0 | C | T | 27.1% | 121.0 / 18.5 | 70 | S39F (TCT→TTT) | ampE | protein AmpE |
| * | NC_000913 | 4,429,990 | 0 | A | T | 26.8% | 115.8 / 13.2 | 57 | M43L (ATG→TTG) | cycA | D‑serine/alanine/glycine/:H(+)symporter |
| * | NC_000913 | 2,878,947 | 0 | C | T | 26.1% | 88.0 / 13.9 | 47 | E276K (GAA→AAA) | cas1 | multifunctional nuclease Cas1 |
| * | NC_000913 | 3,308,995 | 0 | T | A | 25.8% | 126.1 / 12.1 | 62 | intergenic (‑71/+38) | nlpI/pnp | lipoprotein NlpI/polynucleotide phosphorylase |
| * | NC_000913 | 2,465,513 | 0 | C | G | 25.6% | 74.8 / 12.7 | 39 | G71G (GGC→GGG) | yfdC | inner membrane protein YfdC |
| * | NC_000913 | 3,786,524 | 0 | A | G | 24.8% | 233.3 / 18.1 | 109 | D422G (GAT→GGT) | gpmM | 2,3‑bisphosphoglycerate‑independent phosphoglycerate mutase |
| * | NC_000913 | 3,505,088 | 0 | C | T | 23.2% | 122.4 / 14.4 | 69 | S311S (TCG→TCA) | yhfS | putative aminotransferase YhfS |
| * | NC_000913 | 3,971,152 | 0 | A | T | 22.9% | 159.5 / 11.4 | 61 | L340F (TTA→TTT) | wecB | UDP‑N‑acetylglucosamine 2‑epimerase |
| 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 | = 4236805 | 109 (1.720) | 3 (0.050) +C |
3/484 | 3.7 | 3.5% | coding (544/639 nt) | yjbF | lipoprotein YjbF |
| ? | NC_000913 | = 4244325 | 57 (0.900) | coding (751/1545 nt) | malF | maltose ABC transporter membrane subunit MalF | |||||
| * | ? | NC_000913 | = 2609308 | 72 (1.130) | 3 (0.050) | 3/486 | 3.7 | 3.6% | coding (822/1668 nt) | hyfG | hydrogenase 4 catalytic subunit HyfG |
| ? | NC_000913 | 3617755 = | 90 (1.420) | coding (741/765 nt) | nikD | Ni(2(+)) ABC transporter ATP binding subunit NikD | |||||
| * | ? | NC_000913 | = 2538687 | 37 (0.580) | 3 (0.050) | 3/486 | 3.7 | 4.3% | coding (897/912 nt) | cysM | cysteine synthase B |
| ? | NC_000913 | 4128340 = | 95 (1.500) | coding (56/318 nt) | metJ | DNA‑binding transcriptional repressor MetJ | |||||
| * | ? | NC_000913 | = 1340401 | 25 (0.390) | 3 (0.050) | 3/486 | 3.7 | 4.3% | coding (159/309 nt) | lapA | lipopolysaccharide assembly protein A |
| ? | NC_000913 | = 4409719 | 109 (1.720) | coding (445/732 nt) | rlmB | 23S rRNA 2'‑O‑ribose G2251 methyltransferase | |||||
| * | ? | NC_000913 | 800643 = | 19 (0.300) | 3 (0.050) | 3/482 | 3.7 | 7.7% | intergenic (‑68/‑116) | ybhD/ybhH | putative DNA‑binding transcriptional regulator YbhD/putative isomerase YbhH |
| ? | NC_000913 | = 4460243 | 53 (0.840) | coding (122/465 nt) | nrdG | anaerobic ribonucleoside‑triphosphate reductase activating protein | |||||
| * | ? | NC_000913 | 405236 = | 72 (1.130) | 3 (0.050) | 3/486 | 3.7 | 3.6% | coding (409/810 nt) | proC | pyrroline‑5‑carboxylate reductase |
| ? | NC_000913 | 3831907 = | 89 (1.400) | coding (1451/1710 nt) | yicH | AsmA family protein YicH | |||||
| * | ? | NC_000913 | = 196074 | 77 (1.210) | 3 (0.050) | 3/478 | 3.7 | 3.3% | coding (398/858 nt) | cdsA | CDP‑diglyceride synthetase |
| ? | NC_000913 | = 3441098 | 99 (1.580) | coding (578/621 nt) | rpsD | 30S ribosomal subunit protein S4 | |||||