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 56 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | JE3692‑4 | 1,938,270 | 1 | . | C | 70.0% | 78.0 / 30.7 | 30 | intergenic (‑105/+45) | PP_1731/PP_1732 | 23S rRNA (746) and tRNA (32) pseudouridine synthase/Cell division topological specificity factor |
| * | JE3692‑4 | 1,327,121 | 0 | C | T | 56.1% | 19.1 / 170.2 | 114 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | JE3692‑4 | 699,722 | 0 | A | G | 55.7% | 6.6 / 97.8 | 70 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | JE3692‑4 | 4,360,849 | 0 | A | G | 47.4% | 64.8 / 220.4 | 135 | intergenic (‑70/+404) | PP_3820/PP_3821 | Group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | JE3692‑4 | 196,351 | 0 | C | G | 44.8% | 128.4 / inf | 204 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 5,935,666 | 0 | T | G | 44.1% | 105.5 / 19.3 | 68 | intergenic (‑160/+37) | PP_5192/PP_5193 | glycine dehydrogenase/glycine cleavage system H protein 2 |
| * | JE3692‑4 | 195,634 | 0 | C | T | 41.5% | 184.7 / 209.4 | 147 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 4,365,337 | 0 | A | C | 41.4% | 16.7 / 10.7 | 29 | T107P (ACG→CCG) | PP_3827 | 2‑nitropropane dioxygenase |
| * | JE3692‑4 | 196,390 | 0 | T | C | 37.3% | 199.7 / 178.3 | 150 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 884,008 | 0 | A | G | 35.9% | 84.4 / 48.0 | 78 | intergenic (+246/‑82) | PP_0766/PP_0767 | conserved exported protein of unknown function/Transcriptional regulator, LuxR family |
| * | JE3692‑4 | 1,927,172 | 0 | T | C | 35.3% | 70.6 / 18.7 | 51 | intergenic (+15/+46) | PP_1720/PP_1721 | Alcohol dehydrogenase, zinc‑containing/putative phosphoserine phosphatase |
| * | JE3692‑4 | 324,670 | 0 | C | T | 35.1% | 110.4 / 59.1 | 94 | intergenic (‑430/‑45) | PP_0267/PP_0268 | putative Outer membrane ferric siderophore receptor/outer‑membrane porin D |
| * | JE3692‑4 | 3,636,954 | 0 | G | C | 32.6% | 53.6 / 23.6 | 48 | G226G (GGC→GGG) | PP_3195 | conserved protein of unknown function |
| * | JE3692‑4 | 363,987 | 0 | C | G | 32.0% | 151.5 / 43.6 | 88 | G183R (GGC→CGC) | PP_0303 | dehydrocarnitine cleavage enzyme |
| * | JE3692‑4 | 196,327 | 0 | A | C | 31.9% | 285.5 / 235.2 | 209 | T611T (ACA→ACC) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 2,184,203 | 0 | T | C | 31.6% | 111.6 / 47.0 | 79 | N269N (AAT→AAC) | PP_1931 | conserved protein of unknown function |
| * | JE3692‑4 | 5,735,358 | 0 | A | C | 30.8% | 102.2 / 11.7 | 52 | intergenic (‑184/+110) | PP_5024/PP_5025 | Amino acid ABC transporter, periplasmic amino acid‑binding protein/Glucans biosynthesis glucosyltransferase H |
| * | JE3692‑4 | 884,007 | 0 | C | T | 29.5% | 91.9 / 19.0 | 74 | intergenic (+245/‑83) | PP_0766/PP_0767 | conserved exported protein of unknown function/Transcriptional regulator, LuxR family |
| * | JE3692‑4 | 5,935,661 | 0 | C | T | 29.4% | 127.7 / 13.2 | 68 | intergenic (‑155/+42) | PP_5192/PP_5193 | glycine dehydrogenase/glycine cleavage system H protein 2 |
| * | JE3692‑4 | 2,184,200 | 0 | G | A | 29.2% | 139.7 / 22.4 | 81 | T268T (ACG→ACA) | PP_1931 | conserved protein of unknown function |
| Marginal new junction evidence (lowest skew 10 of 209 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | JE3692‑4 | = 652783 | 75 (0.780) | 19 (0.300) | 16/128 | 4.4 | 43.9% | 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 = | 0 (0.000) | 22 (0.310) | 17/146 | 5.0 | 44.9% | intergenic (‑283/‑272) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | JE3692‑4 | 5999855 = | 54 (0.760) | intergenic (+73/‑473) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | JE3692‑4 | = 5999847 | 80 (0.830) | 11 (0.120) | 10/182 | 9.8 | 13.4% | intergenic (+65/‑481) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| ? | JE3692‑4 | 6000039 = | 69 (0.780) | intergenic (+257/‑289) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | JE3692‑4 | 173177 = | NA (NA) | 9 (0.100) | 9/184 | 10.5 | NA | intergenic (+267/‑26) | PP_16SA/PP_23SA | 16S ribosomal RNA/23S ribosomal RNA |
| ? | JE3692‑4 | 173202 = | NA (NA) | intergenic (+292/‑1) | PP_16SA/PP_23SA | 16S ribosomal RNA/23S ribosomal RNA | |||||
| * | ? | JE3692‑4 | = 5213711 | 71 (0.730) | 11 (0.120) | 9/192 | 10.9 | 17.1% | intergenic (‑53/‑127) | PP_4582/PP_4583 | conserved membrane protein of unknown function/putative Peptidase |
| ? | JE3692‑4 | 5213810 = | 38 (0.410) | intergenic (‑152/‑28) | PP_4582/PP_4583 | conserved membrane protein of unknown function/putative Peptidase | |||||
| * | ? | JE3692‑4 | 175943 = | NA (NA) | 10 (0.110) | 8/188 | 11.2 | 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 | = 4820320 | 3 (0.030) | 8 (0.090) | 7/182 | 11.5 | 19.1% | intergenic (‑285/‑270) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | JE3692‑4 | 4820424 = | 65 (0.730) | intergenic (‑389/‑166) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | JE3692‑4 | = 174504 | NA (NA) | 7 (0.070) | 7/198 | 12.3 | NA | noncoding (1302/2902 nt) | PP_23SA | 23S ribosomal RNA |
| ? | JE3692‑4 | = 174531 | NA (NA) | noncoding (1329/2902 nt) | PP_23SA | 23S ribosomal RNA | |||||
| * | ? | JE3692‑4 | 4548492 = | NA (NA) | 6 (0.070) | 6/186 | 12.4 | 14.4% | noncoding (146/2041 nt) | mobile_element | repeat region |
| ? | JE3692‑4 | = 4639998 | 38 (0.390) | noncoding (1929/2041 nt) | mobile_element | repeat region | |||||
| * | ? | JE3692‑4 | = 746822 | NA (NA) | 6 (0.070) | 6/186 | 12.4 | NA | noncoding (1902/2041 nt) | mobile_element | repeat region |
| ? | JE3692‑4 | = 746843 | NA (NA) | noncoding (1923/2041 nt) | mobile_element | repeat region | |||||