mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| JC | 374,644 | +CCCG | coding (384/1110 nt) | frmA ← | alcohol dehydrogenase class III/glutathione‑dependent formaldehyde dehydrogenase |
| RA | 1,484,227 | (T)6→7 | pseudogene (744/750 nt) | gapC ← | pseudogene, GAP dehydrogenase; glyceraldehyde‑3‑phosphate dehydrogenase (second fragment) |
| RA | 1,484,236 | C→G | pseudogene (735/750 nt) | gapC ← | pseudogene, GAP dehydrogenase; glyceraldehyde‑3‑phosphate dehydrogenase (second fragment) |
| RA | 1,484,239 | T→C | pseudogene (732/750 nt) | gapC ← | pseudogene, GAP dehydrogenase; glyceraldehyde‑3‑phosphate dehydrogenase (second fragment) |
| RA | 1,484,245 | T→C | pseudogene (726/750 nt) | gapC ← | pseudogene, GAP dehydrogenase; glyceraldehyde‑3‑phosphate dehydrogenase (second fragment) |
| RA | 1,484,404 | C→T | pseudogene (567/750 nt) | gapC ← | pseudogene, GAP dehydrogenase; glyceraldehyde‑3‑phosphate dehydrogenase (second fragment) |
| RA | 1,484,856 | A→T | pseudogene (115/750 nt) | gapC ← | pseudogene, GAP dehydrogenase; glyceraldehyde‑3‑phosphate dehydrogenase (second fragment) |
| RA | 1,484,919 | C→G | pseudogene (52/750 nt) | gapC ← | pseudogene, GAP dehydrogenase; glyceraldehyde‑3‑phosphate dehydrogenase (second fragment) |
| RA | 1,977,727 | A→C | I275R (ATA→AGA) | araG ← | fused L‑arabinose transporter subunits of ABC superfamily: ATP‑binding components |
| MC JC | 2,093,044 | Δ2,186 bp | IS5‑mediated | [ugd]–wbbL | [ugd], gnd, wbbL |
| RA | 3,433,446 | C→A | G315C (GGC→TGC) | rpoA ← | RNA polymerase, alpha subunit |
| RA | 3,729,296 | A→C | K320Q (AAG→CAG) | xylR → | xylose divergent operon transcriptional activator |
| RA | 4,076,988 | Δ1 bp | coding (2195/3051 nt) | fdoG ← | formate dehydrogenase‑O, large subunit |
| RA | 4,097,480 | Δ1 bp | coding (1/963 nt) | pfkA → | 6‑phosphofructokinase I |
| MC JC | 4,097,486 | Δ962 bp | [pfkA] | [pfkA] | |
| MC JC | 4,303,167 | Δ450 bp | coding (1‑450/450 nt) | rpiB → | ribose 5‑phosphate isomerase B/allose 6‑phosphate isomerase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | CP009273 | 1308860 | 1308955 | 96 | 77 [76] | [0] 180 | [ompW] | [ompW] |
| * | * | ÷ | CP009273 | 1857028 | 1858030 | 1003 | 154 [0] | [0] 144 | [gapA] | [gapA] |
| * | * | ÷ | CP009273 | 3099950 | 3100037 | 88 | 77 [74] | [75] 77 | nupG | nucleoside transporter |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | 360104 = | NA (NA) | 266 (1.920) | 161/296 | 0.0 | 68.0% | intergenic (‑38/+557) | lacZ/lacI | pseudogene, truncated/DNA‑binding transcriptional repressor |
| ? | CP009273 | = 360286 | 125 (0.900) | intergenic (‑220/+375) | lacZ/lacI | pseudogene, truncated/DNA‑binding transcriptional repressor | |||||
| * | ? | CP009273 | 360180 = | 149 (1.070) | 101 (1.250) +62 bp |
79/172 | 0.0 | 70.0% | intergenic (‑114/+481) | lacZ/lacI | pseudogene, truncated/DNA‑binding transcriptional repressor |
| ? | CP009273 | 1308956 = | 0 (0.000) | intergenic (+41/+19) | ompW/yciE | outer membrane protein W/putative rubrerythrin/ferritin‑like metal‑binding protein | |||||
| * | ? | CP009273 | 360652 = | 130 (0.940) | 128 (1.340) +46 bp |
92/204 | 0.0 | 60.5% | intergenic (‑586/+9) | lacZ/lacI | pseudogene, truncated/DNA‑binding transcriptional repressor |
| ? | CP009273 | = 1317577 | 113 (0.810) | coding (101/882 nt) | yciV | PHP domain protein | |||||
| * | ? | CP009273 | 1483968 = | NA (NA) | 142 (1.020) | 109/296 | 0.1 | 100% | intergenic (+40/+2) | aldA/gapC | aldehyde dehydrogenase A, NAD‑linked/pseudogene, GAP dehydrogenase; glyceraldehyde‑3‑phosphate dehydrogenase (second fragment) |
| ? | CP009273 | 1858031 = | 0 (0.000) | intergenic (+8/‑76) | gapA/yeaD | glyceraldehyde‑3‑phosphate dehydrogenase A/D‑hexose‑6‑phosphate epimerase‑like protein | |||||
| * | ? | CP009273 | = 1485085 | 163 (1.170) | 101 (1.130) +53 bp |
73/190 | 0.1 | 65.9% | intergenic (‑115/‑74) | gapC/cybB | pseudogene, GAP dehydrogenase; glyceraldehyde‑3‑phosphate dehydrogenase (second fragment)/cytochrome b561 |
| ? | CP009273 | = 1857027 | 0 (0.000) | intergenic (‑341/‑1) | msrB/gapA | methionine sulfoxide reductase B/glyceraldehyde‑3‑phosphate dehydrogenase A | |||||
| * | ? | CP009273 | 3052022 = | 41 (0.300) | 720 (5.260) +AG |
190/292 | 0.0 | 94.7% | intergenic (‑253/+3) | serA/rpiA | D‑3‑phosphoglycerate dehydrogenase/ribose 5‑phosphate isomerase, constitutive |
| ? | CP009273 | 4161679 = | NA (NA) | noncoding (115/120 nt) | rrfB | 5S ribosomal RNA of rrnB operon | |||||
| * | ? | CP009273 | 3060603 = | 176 (1.270) | 150 (1.080) | 112/296 | 0.1 | 46.0% | intergenic (‑71/+96) | ygfI/yggE | putative DNA‑binding transcriptional regulator/oxidative stress defense protein |
| ? | CP009273 | = 3124699 | NA (NA) | intergenic (+146/+1) | insH1/yghQ | IS5 transposase and trans‑activator/putative inner membrane polysaccharide flippase | |||||
| * | ? | CP009273 | 3179455 = | NA (NA) | 128 (0.920) | 104/296 | 0.2 | 97.7% | intergenic (+7/‑91) | yqiG/insC1 | pseudogene; fimbrial export usher family;putative membrane; Not classified; putative membrane protein/IS2 repressor TnpA |
| ? | CP009273 | = 3426721 | 3 (0.020) | coding (199/1125 nt) | smf | DNA recombination‑mediator A family protein | |||||
| * | ? | CP009273 | = 3180785 | NA (NA) | 141 (1.020) | 106/296 | 0.2 | 97.9% | pseudogene (6/2445 nt) | yqiG | pseudogene; fimbrial export usher family;putative membrane; Not classified; putative membrane protein |
| ? | CP009273 | 3426717 = | 3 (0.020) | coding (203/1125 nt) | smf | DNA recombination‑mediator A family protein | |||||