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 76 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 | 67.2% | 48.9 / 57.5 | 61 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | JE3692‑4 | 4,360,849 | 0 | A | G | 53.2% | 19.7 / 229.0 | 142 | 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 | 49.6% | 65.1 / 206.6 | 121 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | JE3692‑4 | 2,184,203 | 0 | T | C | 42.3% | 60.1 / 71.5 | 78 | N269N (AAT→AAC) | PP_1931 | conserved protein of unknown function |
| * | JE3692‑4 | 196,351 | 0 | C | G | 41.9% | 135.1 / 281.4 | 179 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 2,184,200 | 0 | G | A | 41.4% | 93.0 / 39.0 | 78 | T268T (ACG→ACA) | PP_1931 | conserved protein of unknown function |
| * | JE3692‑4 | 5,735,358 | 0 | A | C | 36.8% | 56.0 / 17.0 | 38 | intergenic (‑184/+110) | PP_5024/PP_5025 | Amino acid ABC transporter, periplasmic amino acid‑binding protein/Glucans biosynthesis glucosyltransferase H |
| * | JE3692‑4 | 195,634 | 0 | C | T | 33.9% | 293.7 / 188.5 | 177 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 1,592,619 | 0 | G | A | 33.3% | 75.8 / 12.4 | 50 | A72T (GCC→ACC) | PP_1397 | conserved protein of unknown function |
| * | JE3692‑4 | 4,350,636 | 0 | T | G | 32.2% | 84.0 / 15.3 | 63 | intergenic (+112/+30) | PP_3812/PP_5632 | putative Lipase/enzyme subunit involved in allo‑isoleucine metabolism |
| * | JE3692‑4 | 196,390 | 0 | T | C | 32.0% | 232.5 / 156.8 | 156 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 4,820,324 | 0 | A | C | 32.0% | 44.5 / 24.1 | 25 | 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 | 32.0% | 40.7 / 21.0 | 25 | intergenic (‑290/‑265) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | JE3692‑4 | 2,184,204 | 0 | G | C | 31.8% | 130.2 / 37.0 | 77 | V270L (GTC→CTC) | PP_1931 | conserved protein of unknown function |
| * | JE3692‑4 | 196,327 | 0 | A | C | 31.1% | 275.9 / 209.5 | 194 | T611T (ACA→ACC) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 1,592,607 | 0 | G | A | 30.9% | 96.1 / 10.3 | 55 | E68K (GAG→AAG) | PP_1397 | conserved protein of unknown function |
| * | JE3692‑4 | 363,987 | 0 | C | G | 30.7% | 171.6 / 46.7 | 92 | G183R (GGC→CGC) | PP_0303 | dehydrocarnitine cleavage enzyme |
| * | JE3692‑4 | 324,670 | 0 | C | T | 29.4% | 172.3 / 53.8 | 102 | intergenic (‑430/‑45) | PP_0267/PP_0268 | putative Outer membrane ferric siderophore receptor/outer‑membrane porin D |
| * | JE3692‑4 | 4,820,330 | 0 | C | T | 29.2% | 38.1 / 16.3 | 24 | 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 | 29.2% | 49.2 / 20.5 | 24 | intergenic (‑296/‑259) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| Marginal new junction evidence (lowest skew 10 of 237 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | JE3692‑4 | = 652782 | 109 (1.070) | 29 (0.360) | 24/158 | 4.2 | 40.1% | 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 | = 652783 | 111 (1.090) | 26 (0.400) | 15/128 | 5.2 | 42.1% | 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 | = 4820323 | 17 (0.170) | 24 (0.300) | 18/158 | 5.9 | 34.2% | intergenic (‑288/‑267) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | JE3692‑4 | = 6000025 | 79 (0.970) | intergenic (+243/‑303) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | JE3692‑4 | 4820318 = | 18 (0.180) | 27 (0.360) | 16/146 | 6.0 | 43.1% | intergenic (‑283/‑272) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | JE3692‑4 | 5999855 = | 58 (0.770) | intergenic (+73/‑473) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | JE3692‑4 | = 4820323 | 17 (0.170) | 22 (0.250) | 18/174 | 6.8 | 33.1% | intergenic (‑288/‑267) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | JE3692‑4 | 5999841 = | 74 (0.830) | intergenic (+59/‑487) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | JE3692‑4 | = 611115 | NA (NA) | 10 (0.100) | 10/188 | 11.1 | NA | noncoding (216/1314 nt) | mobile_element | repeat region |
| ? | JE3692‑4 | = 611138 | NA (NA) | noncoding (239/1314 nt) | mobile_element | repeat region | |||||
| * | ? | JE3692‑4 | = 1297409 | NA (NA) | 10 (0.100) | 9/190 | 11.7 | NA | noncoding (925/2040 nt) | mobile_element | repeat region |
| ? | JE3692‑4 | = 1297436 | NA (NA) | noncoding (952/2040 nt) | mobile_element | repeat region | |||||
| * | ? | JE3692‑4 | = 5213711 | 79 (0.770) | 12 (0.120) | 9/192 | 11.9 | 17.6% | intergenic (‑53/‑127) | PP_4582/PP_4583 | conserved membrane protein of unknown function/putative Peptidase |
| ? | JE3692‑4 | 5213810 = | 36 (0.360) | intergenic (‑152/‑28) | PP_4582/PP_4583 | conserved membrane protein of unknown function/putative Peptidase | |||||
| * | ? | JE3692‑4 | 173168 = | NA (NA) | 10 (0.110) | 8/184 | 12.0 | NA | intergenic (+258/‑35) | PP_16SA/PP_23SA | 16S ribosomal RNA/23S ribosomal RNA |
| ? | JE3692‑4 | 173216 = | NA (NA) | noncoding (14/2902 nt) | PP_23SA | 23S ribosomal RNA | |||||
| * | ? | JE3692‑4 | = 2556265 | NA (NA) | 11 (0.110) | 8/186 | 12.1 | NA | intergenic (+160/‑84) | PP_t36/PP_23SF | tRNA‑Ala/23S ribosomal RNA |
| ? | JE3692‑4 | = 2556295 | NA (NA) | intergenic (+190/‑54) | PP_t36/PP_23SF | tRNA‑Ala/23S ribosomal RNA | |||||