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 |
| Marginal read alignment evidence (highest frequency 20 of 43 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | JE3692‑4 | 699,722 | 0 | A | G | 58.8% | 12.1 / 65.9 | 51 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | JE3692‑4 | 4,820,324 | 0 | A | C | 57.9% | ‑6.7 / 23.6 | 19 | intergenic (‑289/‑266) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | JE3692‑4 | 4,820,325 | 0 | A | G | 57.9% | ‑6.7 / 23.1 | 19 | intergenic (‑290/‑265) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | JE3692‑4 | 4,360,849 | 0 | A | G | 49.0% | 52.6 / 261.2 | 154 | intergenic (‑70/+404) | PP_3820/PP_3821 | Group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | JE3692‑4 | 1,327,121 | 0 | C | T | 45.7% | 93.9 / 202.1 | 127 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | JE3692‑4 | 4,820,330 | 0 | C | T | 40.0% | 13.3 / 15.7 | 15 | intergenic (‑295/‑260) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | JE3692‑4 | 4,820,331 | 0 | G | T | 40.0% | 16.1 / 16.6 | 15 | intergenic (‑296/‑259) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | JE3692‑4 | 1,592,619 | 0 | G | A | 37.5% | 39.9 / 11.6 | 34 | A72T (GCC→ACC) | PP_1397 | conserved protein of unknown function |
| * | JE3692‑4 | 324,670 | 0 | C | T | 34.2% | 161.3 / 74.9 | 119 | intergenic (‑430/‑45) | PP_0267/PP_0268 | putative Outer membrane ferric siderophore receptor/outer‑membrane porin D |
| * | JE3692‑4 | 196,390 | 0 | T | C | 33.8% | 238.3 / 157.2 | 154 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 195,634 | 0 | C | T | 33.3% | 367.1 / 228.9 | 217 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 196,351 | 0 | C | G | 32.7% | 355.8 / 270.4 | 226 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 1,592,599 | 0 | C | G | 30.8% | 35.7 / 10.3 | 31 | A65G (GCC→GGC) | PP_1397 | conserved protein of unknown function |
| * | JE3692‑4 | 5,999,981 | 0 | T | C | 29.5% | 164.0 / 59.1 | 79 | intergenic (+199/‑347) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | JE3692‑4 | 4,341,111 | 0 | A | C | 28.8% | 110.5 / 33.3 | 59 | D72A (GAC→GCC) | PP_3799 | conserved exported protein of unknown function |
| * | JE3692‑4 | 6,102,456 | 0 | G | C | 28.6% | 143.9 / 30.8 | 64 | A193P (GCC→CCC) | PP_5343 | putative Transcriptional regulator |
| * | JE3692‑4 | 4,385,661 | 0 | C | T | 28.1% | 126.5 / 26.6 | 66 | G177G (GGC→GGT) | PP_3849 | putative calcium‑binding protein, hemolysin‑type |
| * | JE3692‑4 | 2,184,203 | 0 | T | C | 27.6% | 147.6 / 50.7 | 87 | N269N (AAT→AAC) | PP_1931 | conserved protein of unknown function |
| * | JE3692‑4 | 3,941,931 | 0 | C | T | 27.1% | 105.5 / 10.1 | 50 | intergenic (+10/+28) | PP_3464/PP_5603 | conserved exported protein of unknown function/putative FAD dependent oxidoreductase |
| * | JE3692‑4 | 5,999,970 | 0 | C | T | 26.9% | 182.6 / 57.3 | 79 | intergenic (+188/‑358) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| Marginal new junction evidence (lowest skew 10 of 143 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | JE3692‑4 | = 652782 | 69 (0.580) | 48 (0.510) | 30/152 | 3.6 | 63.7% | coding (1961/1962 nt) | PP_0562 | Methyl‑accepting chemotaxis protein CtpL |
| ? | JE3692‑4 | = 4820303 | 0 (0.000) | intergenic (‑268/‑287) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | JE3692‑4 | = 1644999 | 0 (0.000) | 42 (0.360) | 36/190 | 4.1 | 100% | intergenic (‑258/‑188) | PP_1443/araE (Ppu opt) | DNA‑binding, ATP‑dependent protease/– |
| ? | JE3692‑4 | = 1652985 | 0 (0.000) | intergenic (+174/+34) | nahF (Ppu opt)/PP_1445 | –/carbohydrate‑selective porin | |||||
| * | ? | JE3692‑4 | = 4820323 | 8 (0.070) | 35 (0.370) | 21/152 | 5.8 | 51.3% | intergenic (‑288/‑267) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | JE3692‑4 | = 6000025 | 60 (0.640) | intergenic (+243/‑303) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | JE3692‑4 | = 4820323 | 8 (0.070) | 40 (0.380) | 23/168 | 6.1 | 46.2% | intergenic (‑288/‑267) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | JE3692‑4 | 5999841 = | 86 (0.830) | intergenic (+59/‑487) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | JE3692‑4 | = 652783 | 70 (0.590) | 10 (0.130) | 9/122 | 8.6 | 31.0% | coding (1960/1962 nt) | PP_0562 | Methyl‑accepting chemotaxis protein CtpL |
| ? | JE3692‑4 | 4820353 = | 0 (0.000) | intergenic (‑318/‑237) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | JE3692‑4 | 4820318 = | 20 (0.170) | 13 (0.150) | 10/140 | 9.3 | 26.1% | intergenic (‑283/‑272) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | JE3692‑4 | 5999855 = | 59 (0.680) | intergenic (+73/‑473) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | JE3692‑4 | 5324896 = | NA (NA) | 14 (0.120) | 13/184 | 10.4 | 100% | intergenic (‑71/+643) | PP_16SG/PP_4675 | 16S ribosomal RNA/methionine sulfoxide reductase heme‑binding subunit |
| ? | JE3692‑4 | 5324914 = | 0 (0.000) | intergenic (‑89/+625) | PP_16SG/PP_4675 | 16S ribosomal RNA/methionine sulfoxide reductase heme‑binding subunit | |||||
| * | ? | JE3692‑4 | = 2092124 | NA (NA) | 12 (0.100) | 10/186 | 12.0 | NA | noncoding (729/1445 nt) | mobile_element | repeat region |
| ? | JE3692‑4 | = 2092174 | NA (NA) | noncoding (779/1445 nt) | mobile_element | repeat region | |||||
| * | ? | JE3692‑4 | 611741 = | NA (NA) | 16 (0.140) | 10/186 | 12.0 | NA | noncoding (842/1314 nt) | mobile_element | repeat region |
| ? | JE3692‑4 | 611766 = | NA (NA) | noncoding (867/1314 nt) | mobile_element | repeat region | |||||
| * | ? | JE3692‑4 | 171653 = | NA (NA) | 12 (0.100) | 10/188 | 12.1 | NA | noncoding (265/1522 nt) | PP_16SA | 16S ribosomal RNA |
| ? | JE3692‑4 | 171682 = | NA (NA) | noncoding (294/1522 nt) | PP_16SA | 16S ribosomal RNA | |||||