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 47 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | JE3692‑4 | 4,360,849 | 0 | A | G | 53.6% | ‑4.5 / 210.0 | 140 | intergenic (‑70/+404) | PP_3820/PP_3821 | Group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | JE3692‑4 | 699,722 | 0 | A | G | 48.3% | 23.8 / 143.8 | 89 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | JE3692‑4 | 1,927,172 | 0 | T | C | 45.6% | 34.3 / 27.1 | 46 | intergenic (+15/+46) | PP_1720/PP_1721 | Alcohol dehydrogenase, zinc‑containing/putative phosphoserine phosphatase |
| * | JE3692‑4 | 1,327,121 | 0 | C | T | 43.6% | 99.5 / 169.0 | 118 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | JE3692‑4 | 196,351 | 0 | C | G | 41.1% | 164.7 / 266.5 | 176 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 2,184,200 | 0 | G | A | 36.4% | 98.7 / 31.8 | 75 | T268T (ACG→ACA) | PP_1931 | conserved protein of unknown function |
| * | JE3692‑4 | 5,999,981 | 0 | T | C | 34.9% | 143.8 / 84.9 | 83 | intergenic (+199/‑347) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | JE3692‑4 | 3,324,819 | 0 | C | G | 34.9% | 61.0 / 26.9 | 46 | intergenic (+16/‑146) | PP_2912/PP_2913 | conserved protein of unknown function/5‑aminolevulinate dehydratase |
| * | JE3692‑4 | 195,634 | 0 | C | T | 34.7% | 260.7 / 180.1 | 167 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 1,541,581 | 0 | C | T | 34.5% | 121.7 / 51.7 | 94 | intergenic (‑57/‑44) | PP_1351/PP_1352 | putative 2‑dehydropantoate 2‑reductase/UPF0234 protein PP_1352 |
| * | JE3692‑4 | 196,390 | 0 | T | C | 34.0% | 216.0 / 142.5 | 142 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 5,999,970 | 0 | C | T | 33.8% | 141.7 / 82.5 | 80 | intergenic (+188/‑358) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | JE3692‑4 | 5,999,971 | 0 | A | G | 33.8% | 150.0 / 82.7 | 80 | intergenic (+189/‑357) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | JE3692‑4 | 5,999,965 | 0 | C | A | 32.9% | 159.6 / 82.4 | 79 | intergenic (+183/‑363) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | JE3692‑4 | 5,999,987 | 0 | A | . | 32.5% | 220.2 / 114.8 | 85 | intergenic (+205/‑341) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | JE3692‑4 | 2,184,203 | 0 | T | C | 31.2% | 115.5 / 46.8 | 80 | N269N (AAT→AAC) | PP_1931 | conserved protein of unknown function |
| * | JE3692‑4 | 196,327 | 0 | A | C | 30.3% | 290.4 / 192.6 | 188 | T611T (ACA→ACC) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 324,670 | 0 | C | T | 28.6% | 164.2 / 49.2 | 98 | intergenic (‑430/‑45) | PP_0267/PP_0268 | putative Outer membrane ferric siderophore receptor/outer‑membrane porin D |
| * | JE3692‑4 | 5,563,987 | 0 | G | T | 26.8% | 190.4 / 30.1 | 82 | intergenic (+574/+87) | PP_4882/PP_5717 | Iron ABC transporter, permease protein/conserved protein of unknown function |
| * | JE3692‑4 | 884,008 | 0 | A | G | 25.9% | 142.6 / 32.9 | 85 | intergenic (+246/‑82) | PP_0766/PP_0767 | conserved exported protein of unknown function/Transcriptional regulator, LuxR family |
| Marginal new junction evidence (lowest skew 10 of 851 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | JE3692‑4 | = 652783 | 82 (0.810) | 26 (0.400) | 15/126 | 4.5 | 49.7% | 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 | = 173119 | NA (NA) | 22 (0.230) | 17/184 | 6.6 | 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 | = 2556265 | NA (NA) | 21 (0.220) | 16/184 | 6.9 | 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 | = 5999847 | 104 (1.030) | 17 (0.180) | 14/180 | 7.4 | 16.9% | intergenic (+65/‑481) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| ? | JE3692‑4 | 6000039 = | 72 (0.780) | intergenic (+257/‑289) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | JE3692‑4 | 172301 = | NA (NA) | 19 (0.200) | 14/188 | 7.8 | NA | noncoding (913/1522 nt) | PP_16SA | 16S ribosomal RNA |
| ? | JE3692‑4 | 172321 = | NA (NA) | noncoding (933/1522 nt) | PP_16SA | 16S ribosomal RNA | |||||
| * | ? | JE3692‑4 | = 175970 | NA (NA) | 16 (0.170) | 12/182 | 8.3 | NA | noncoding (2768/2902 nt) | PP_23SA | 23S ribosomal RNA |
| ? | JE3692‑4 | = 175984 | NA (NA) | noncoding (2782/2902 nt) | PP_23SA | 23S ribosomal RNA | |||||
| * | ? | JE3692‑4 | 173177 = | NA (NA) | 12 (0.130) | 11/182 | 8.7 | 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 | 171653 = | NA (NA) | 16 (0.160) | 12/192 | 8.7 | NA | noncoding (265/1522 nt) | PP_16SA | 16S ribosomal RNA |
| ? | JE3692‑4 | 171682 = | NA (NA) | noncoding (294/1522 nt) | PP_16SA | 16S ribosomal RNA | |||||
| * | ? | JE3692‑4 | = 611115 | NA (NA) | 11 (0.120) | 10/186 | 9.4 | NA | noncoding (216/1314 nt) | mobile_element | repeat region |
| ? | JE3692‑4 | = 611138 | NA (NA) | noncoding (239/1314 nt) | mobile_element | repeat region | |||||
| * | ? | JE3692‑4 | 175943 = | NA (NA) | 11 (0.120) | 10/186 | 9.4 | NA | noncoding (2741/2902 nt) | PP_23SA | 23S ribosomal RNA |
| ? | JE3692‑4 | 175972 = | NA (NA) | noncoding (2770/2902 nt) | PP_23SA | 23S ribosomal RNA | |||||