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 48 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 | 55.3% | ‑4.6 / 67.0 | 47 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | JE3692‑4 | 1,327,121 | 0 | C | T | 52.4% | 32.8 / 133.1 | 88 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | JE3692‑4 | 4,360,849 | 0 | A | G | 48.3% | 39.5 / 189.0 | 116 | intergenic (‑70/+404) | PP_3820/PP_3821 | Group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | JE3692‑4 | 4,365,327 | 0 | C | G | 40.0% | 25.8 / 15.6 | 27 | G103G (GGC→GGG) | PP_3827 | 2‑nitropropane dioxygenase |
| * | JE3692‑4 | 278,754 | 0 | A | C | 37.0% | 74.2 / 19.9 | 54 | intergenic (‑249/+65) | PP_0224/PP_0225 | Monooxygenase, DszC family/sulfur compound ABC transporter ‑ ATP‑binding subunit |
| * | JE3692‑4 | 1,927,172 | 0 | T | C | 35.5% | 35.6 / 18.1 | 32 | intergenic (+15/+46) | PP_1720/PP_1721 | Alcohol dehydrogenase, zinc‑containing/putative phosphoserine phosphatase |
| * | JE3692‑4 | 196,351 | 0 | C | G | 34.8% | 231.6 / 194.8 | 155 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 3,636,954 | 0 | G | C | 33.9% | 54.2 / 38.2 | 63 | G226G (GGC→GGG) | PP_3195 | conserved protein of unknown function |
| * | JE3692‑4 | 5,735,358 | 0 | A | C | 33.3% | 80.2 / 10.4 | 42 | intergenic (‑184/+110) | PP_5024/PP_5025 | Amino acid ABC transporter, periplasmic amino acid‑binding protein/Glucans biosynthesis glucosyltransferase H |
| * | JE3692‑4 | 1,931,356 | 0 | A | C | 32.4% | 54.0 / 14.5 | 35 | intergenic (‑23/+77) | PP_1725/PP_1726 | conserved protein of unknown function/ABC transporter, periplasmic binding protein |
| * | JE3692‑4 | 195,634 | 0 | C | T | 30.9% | 290.3 / 149.6 | 153 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 1,904,632 | 0 | A | C | 30.9% | 186.1 / 26.2 | 95 | intergenic (+70/‑450) | PP_t18/PP_1703 | tRNA‑Asp/assimilatory nitrate reductase/sulfite reductase |
| * | JE3692‑4 | 324,670 | 0 | C | T | 30.6% | 101.6 / 30.0 | 62 | intergenic (‑430/‑45) | PP_0267/PP_0268 | putative Outer membrane ferric siderophore receptor/outer‑membrane porin D |
| * | JE3692‑4 | 884,007 | 0 | C | T | 29.8% | 68.2 / 17.4 | 62 | intergenic (+245/‑83) | PP_0766/PP_0767 | conserved exported protein of unknown function/Transcriptional regulator, LuxR family |
| * | JE3692‑4 | 196,390 | 0 | T | C | 28.5% | 258.0 / 106.8 | 131 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 6,080,451 | 0 | T | G | 28.4% | 126.0 / 37.3 | 67 | T166T (ACA→ACC) | PP_5324 | Response regulator |
| * | JE3692‑4 | 5,563,987 | 0 | G | T | 28.2% | 181.3 / 24.8 | 86 | intergenic (+574/+87) | PP_4882/PP_5717 | Iron ABC transporter, permease protein/conserved protein of unknown function |
| * | JE3692‑4 | 1,592,599 | 0 | C | G | 27.6% | 44.7 / 10.9 | 31 | A65G (GCC→GGC) | PP_1397 | conserved protein of unknown function |
| * | JE3692‑4 | 1,025,281 | 0 | C | G | 27.5% | 87.6 / 14.0 | 45 | intergenic (‑135/+94) | PP_0883/PP_0884 | glycine‑glutamate dipeptide porin/dipeptide ABC transporter ‑ periplasmic binding protein |
| * | JE3692‑4 | 1,904,655 | 0 | A | C | 26.1% | 211.8 / 11.4 | 92 | intergenic (+93/‑427) | PP_t18/PP_1703 | tRNA‑Asp/assimilatory nitrate reductase/sulfite reductase |
| Marginal new junction evidence (lowest skew 10 of 169 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | JE3692‑4 | = 5566684 | 0 (0.000) | 44 (0.530) +GCC |
28/192 | 3.3 | 100% | intergenic (‑84/+87) | PP_4887/PP_4888 | conserved protein of unknown function/putative methyl‑accepting chemotaxis transducer |
| ? | JE3692‑4 | 5566685 = | 0 (0.000) | intergenic (‑85/+86) | PP_4887/PP_4888 | conserved protein of unknown function/putative methyl‑accepting chemotaxis transducer | |||||
| * | ? | JE3692‑4 | = 5692491 | 0 (0.000) | 34 (0.420) +CGGG |
27/190 | 3.4 | 100% | intergenic (‑133/+71) | PP_4986/PP_4987 | Channel protein, hemolysin III family/putative Chemotaxis protein |
| ? | JE3692‑4 | 5692492 = | 0 (0.000) | intergenic (‑134/+70) | PP_4986/PP_4987 | Channel protein, hemolysin III family/putative Chemotaxis protein | |||||
| * | ? | JE3692‑4 | = 652783 | 59 (0.690) | 18 (0.330) | 11/128 | 5.2 | 47.9% | coding (1960/1962 nt) | PP_0562 | Methyl‑accepting chemotaxis protein CtpL |
| ? | JE3692‑4 | 4820353 = | 1 (0.020) | intergenic (‑318/‑237) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | JE3692‑4 | = 5999847 | 52 (0.610) | 14 (0.180) | 13/182 | 7.1 | 19.9% | intergenic (+65/‑481) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| ? | JE3692‑4 | 6000039 = | 65 (0.830) | intergenic (+257/‑289) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | JE3692‑4 | = 2556265 | NA (NA) | 15 (0.190) | 13/186 | 7.3 | 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 | |||||
| * | ? | JE3692‑4 | = 173119 | NA (NA) | 15 (0.190) | 13/186 | 7.3 | NA | intergenic (+209/‑84) | PP_16SA/PP_23SA | 16S ribosomal RNA/23S ribosomal RNA |
| ? | JE3692‑4 | = 173149 | NA (NA) | intergenic (+239/‑54) | PP_16SA/PP_23SA | 16S ribosomal RNA/23S ribosomal RNA | |||||
| * | ? | JE3692‑4 | = 5213711 | 44 (0.520) | 10 (0.120) | 10/192 | 8.9 | 17.1% | intergenic (‑53/‑127) | PP_4582/PP_4583 | conserved membrane protein of unknown function/putative Peptidase |
| ? | JE3692‑4 | 5213810 = | 54 (0.650) | intergenic (‑152/‑28) | PP_4582/PP_4583 | conserved membrane protein of unknown function/putative Peptidase | |||||
| * | ? | JE3692‑4 | = 178786 | NA (NA) | 10 (0.120) | 8/188 | 9.7 | NA | noncoding (154/2902 nt) | PP_23SB | 23S ribosomal RNA |
| ? | JE3692‑4 | = 178803 | NA (NA) | noncoding (171/2902 nt) | PP_23SB | 23S ribosomal RNA | |||||
| * | ? | JE3692‑4 | 175943 = | NA (NA) | 12 (0.150) | 8/188 | 9.7 | NA | noncoding (2741/2902 nt) | PP_23SA | 23S ribosomal RNA |
| ? | JE3692‑4 | 175972 = | NA (NA) | noncoding (2770/2902 nt) | PP_23SA | 23S ribosomal RNA | |||||
| * | ? | JE3692‑4 | 175964 = | NA (NA) | 8 (0.100) | 7/184 | 10.1 | NA | noncoding (2762/2902 nt) | PP_23SA | 23S ribosomal RNA |
| ? | JE3692‑4 | 175992 = | NA (NA) | noncoding (2790/2902 nt) | PP_23SA | 23S ribosomal RNA | |||||