mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
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 41 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 | 53.8% | 7.0 / 182.2 | 119 | intergenic (‑70/+404) | PP_3820/PP_3821 | Group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | JE3692‑4 | 699,722 | 0 | A | G | 50.0% | 8.9 / 147.8 | 90 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | JE3692‑4 | 1,327,121 | 0 | C | T | 42.4% | 92.0 / 138.5 | 99 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | JE3692‑4 | 1,927,172 | 0 | T | C | 42.2% | 26.7 / 31.2 | 45 | intergenic (+15/+46) | PP_1720/PP_1721 | Alcohol dehydrogenase, zinc‑containing/putative phosphoserine phosphatase |
| * | JE3692‑4 | 196,351 | 0 | C | G | 40.6% | 219.8 / 310.3 | 208 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 195,634 | 0 | C | T | 39.5% | 216.0 / 208.1 | 162 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 196,390 | 0 | T | C | 34.9% | 245.5 / 184.4 | 169 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 2,184,200 | 0 | G | A | 33.3% | 88.6 / 22.4 | 62 | T268T (ACG→ACA) | PP_1931 | conserved protein of unknown function |
| * | JE3692‑4 | 2,184,203 | 0 | T | C | 31.8% | 94.4 / 32.2 | 63 | N269N (AAT→AAC) | PP_1931 | conserved protein of unknown function |
| * | JE3692‑4 | 196,327 | 0 | A | C | 30.9% | 324.5 / 223.6 | 211 | T611T (ACA→ACC) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 3,324,834 | 0 | A | G | 27.6% | 127.9 / 19.1 | 66 | intergenic (+31/‑131) | PP_2912/PP_2913 | conserved protein of unknown function/5‑aminolevulinate dehydratase |
| * | JE3692‑4 | 3,636,954 | 0 | G | C | 27.5% | 57.6 / 15.4 | 48 | G226G (GGC→GGG) | PP_3195 | conserved protein of unknown function |
| * | JE3692‑4 | 2,750,794 | 0 | A | G | 27.4% | 166.4 / 16.0 | 73 | intergenic (+5/+30) | PP_2399/PP_2400 | conserved protein of unknown function/conserved protein of unknown function |
| * | JE3692‑4 | 316,226 | 0 | G | C | 27.0% | 138.2 / 28.3 | 64 | A100G (GCG→GGG) | PP_0262 | conserved protein of unknown function |
| * | JE3692‑4 | 5,999,970 | 0 | C | T | 26.8% | 186.7 / 61.7 | 82 | intergenic (+188/‑358) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | JE3692‑4 | 5,999,971 | 0 | A | G | 26.8% | 192.1 / 63.7 | 82 | intergenic (+189/‑357) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | JE3692‑4 | 5,999,981 | 0 | T | C | 26.5% | 190.2 / 52.2 | 83 | intergenic (+199/‑347) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | JE3692‑4 | 5,999,987 | 0 | A | . | 26.5% | 242.3 / 89.5 | 83 | intergenic (+205/‑341) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | JE3692‑4 | 5,111,733 | 0 | T | G | 26.2% | 188.2 / 10.2 | 81 | intergenic (‑198/‑71) | PP_4487/PP_4488 | acetyl‑CoA synthetase/conserved exported protein of unknown function |
| * | JE3692‑4 | 3,324,819 | 0 | C | G | 25.0% | 146.8 / 26.5 | 68 | intergenic (+16/‑146) | PP_2912/PP_2913 | conserved protein of unknown function/5‑aminolevulinate dehydratase |
| Marginal new junction evidence (lowest skew 10 of 931 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | JE3692‑4 | 4820318 = | 4 (0.050) | 20 (0.310) | 12/144 | 4.6 | 40.0% | intergenic (‑283/‑272) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | JE3692‑4 | 5999855 = | 57 (0.890) | intergenic (+73/‑473) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | JE3692‑4 | = 652783 | 67 (0.770) | 19 (0.340) | 10/126 | 4.6 | 45.2% | coding (1960/1962 nt) | PP_0562 | Methyl‑accepting chemotaxis protein CtpL |
| ? | JE3692‑4 | 4820353 = | 3 (0.050) | intergenic (‑318/‑237) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | JE3692‑4 | = 4820318 | 1 (0.010) | 15 (0.190) | 12/180 | 5.9 | 85.9% | intergenic (‑283/‑272) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | JE3692‑4 | 4820333 = | 4 (0.050) | intergenic (‑298/‑257) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | JE3692‑4 | 173168 = | NA (NA) | 16 (0.200) | 12/182 | 6.0 | 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 | 1297692 = | NA (NA) | 16 (0.190) | 12/190 | 6.2 | NA | noncoding (1208/2040 nt) | mobile_element | repeat region |
| ? | JE3692‑4 | 1297721 = | NA (NA) | noncoding (1237/2040 nt) | mobile_element | repeat region | |||||
| * | ? | JE3692‑4 | = 611136 | NA (NA) | 14 (0.170) | 12/190 | 6.2 | NA | noncoding (237/1314 nt) | mobile_element | repeat region |
| ? | JE3692‑4 | = 611169 | NA (NA) | noncoding (270/1314 nt) | mobile_element | repeat region | |||||
| * | ? | JE3692‑4 | 5324331 = | NA (NA) | 16 (0.190) | 11/186 | 6.4 | NA | noncoding (495/1522 nt) | PP_16SG | 16S ribosomal RNA |
| ? | JE3692‑4 | 5324357 = | NA (NA) | noncoding (469/1522 nt) | PP_16SG | 16S ribosomal RNA | |||||
| * | ? | JE3692‑4 | = 2556265 | NA (NA) | 9 (0.110) | 9/184 | 7.1 | 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 | |||||
| * | ? | JE3692‑4 | = 175970 | NA (NA) | 14 (0.170) | 9/182 | 7.1 | 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 | = 173119 | NA (NA) | 9 (0.110) | 9/184 | 7.1 | 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 | |||||