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 51 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | JE3692‑4 | 1,327,121 | 0 | C | T | 58.8% | 12.6 / 176.4 | 135 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | JE3692‑4 | 4,360,849 | 0 | A | G | 52.9% | 3.3 / 164.1 | 102 | intergenic (‑70/+404) | PP_3820/PP_3821 | Group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | JE3692‑4 | 699,722 | 0 | A | G | 52.3% | ‑2.8 / 137.9 | 88 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | JE3692‑4 | 195,634 | 0 | C | T | 44.8% | 145.9 / 205.3 | 143 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 4,365,327 | 0 | C | G | 38.2% | 41.9 / 22.9 | 36 | G103G (GGC→GGG) | PP_3827 | 2‑nitropropane dioxygenase |
| * | JE3692‑4 | 2,184,203 | 0 | T | C | 38.2% | 71.2 / 61.2 | 76 | N269N (AAT→AAC) | PP_1931 | conserved protein of unknown function |
| * | JE3692‑4 | 2,184,200 | 0 | G | A | 37.5% | 94.4 / 30.4 | 72 | T268T (ACG→ACA) | PP_1931 | conserved protein of unknown function |
| * | JE3692‑4 | 196,351 | 0 | C | G | 35.4% | 206.1 / 203.7 | 164 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 3,636,954 | 0 | G | C | 32.0% | 32.7 / 11.3 | 27 | G226G (GGC→GGG) | PP_3195 | conserved protein of unknown function |
| * | JE3692‑4 | 5,999,981 | 0 | T | C | 31.0% | 141.5 / 63.3 | 71 | intergenic (+199/‑347) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | JE3692‑4 | 195,559 | 0 | C | A | 30.7% | 191.9 / 98.2 | 101 | T355T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 5,999,965 | 0 | C | A | 30.7% | 163.0 / 71.2 | 75 | intergenic (+183/‑363) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | JE3692‑4 | 353,600 | 0 | C | T | 30.6% | 164.9 / 46.1 | 104 | G244S (GGT→AGT) | PP_0294 | choline / betaine / carnitine ABC transporter ‑ ATP binding subunit |
| * | JE3692‑4 | 4,630,642 | 0 | A | G | 29.3% | 137.6 / 39.8 | 75 | I85V (ATC→GTC) | PP_5652 | conserved protein of unknown function, phage origin |
| * | JE3692‑4 | 884,007 | 0 | C | T | 29.2% | 102.5 / 19.9 | 74 | intergenic (+245/‑83) | PP_0766/PP_0767 | conserved exported protein of unknown function/Transcriptional regulator, LuxR family |
| * | JE3692‑4 | 5,999,970 | 0 | C | T | 29.1% | 163.6 / 67.8 | 79 | intergenic (+188/‑358) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | JE3692‑4 | 5,999,971 | 0 | A | G | 29.1% | 167.6 / 64.9 | 79 | intergenic (+189/‑357) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | JE3692‑4 | 196,390 | 0 | T | C | 28.9% | 233.4 / 109.8 | 128 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 1,904,632 | 0 | A | C | 28.6% | 144.1 / 15.9 | 70 | intergenic (+70/‑450) | PP_t18/PP_1703 | tRNA‑Asp/assimilatory nitrate reductase/sulfite reductase |
| * | JE3692‑4 | 2,184,204 | 0 | G | C | 28.6% | 132.0 / 29.0 | 78 | V270L (GTC→CTC) | PP_1931 | conserved protein of unknown function |
| Marginal new junction evidence (lowest skew 10 of 941 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | JE3692‑4 | = 652783 | 89 (1.000) | 25 (0.440) | 14/126 | 3.8 | 46.8% | 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 = | 1 (0.010) | 27 (0.410) | 14/144 | 4.6 | 57.0% | intergenic (‑283/‑272) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | JE3692‑4 | 5999855 = | 40 (0.610) | intergenic (+73/‑473) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | JE3692‑4 | 173168 = | NA (NA) | 17 (0.210) | 15/182 | 5.7 | 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 | = 699026 | NA (NA) | 13 (0.150) | 13/190 | 6.6 | NA | noncoding (1203/1522 nt) | PP_16SD | 16S ribosomal RNA |
| ? | JE3692‑4 | = 699060 | NA (NA) | noncoding (1237/1522 nt) | PP_16SD | 16S ribosomal RNA | |||||
| * | ? | JE3692‑4 | = 178786 | NA (NA) | 16 (0.190) | 12/186 | 6.8 | 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 | 174176 = | NA (NA) | 15 (0.180) | 11/188 | 7.3 | NA | noncoding (974/2902 nt) | PP_23SA | 23S ribosomal RNA |
| ? | JE3692‑4 | 174213 = | NA (NA) | noncoding (1011/2902 nt) | PP_23SA | 23S ribosomal RNA | |||||
| * | ? | JE3692‑4 | 172301 = | NA (NA) | 15 (0.180) | 11/188 | 7.3 | 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 | = 172591 | NA (NA) | 11 (0.130) | 11/190 | 7.4 | NA | noncoding (1203/1522 nt) | PP_16SA | 16S ribosomal RNA |
| ? | JE3692‑4 | = 172625 | NA (NA) | noncoding (1237/1522 nt) | PP_16SA | 16S ribosomal RNA | |||||
| * | ? | JE3692‑4 | 100443 = | 79 (0.890) | 11 (0.150) | 8/162 | 7.6 | 13.8% | intergenic (‑35/+87) | PP_0094/PP_0095 | 5'‑nucleotidase/putative enzyme of unknown function |
| ? | JE3692‑4 | 100525 = | 72 (0.980) | intergenic (‑117/+5) | PP_0094/PP_0095 | 5'‑nucleotidase/putative enzyme of unknown function | |||||
| * | ? | JE3692‑4 | 750218 = | 84 (0.940) | 15 (0.180) | 9/186 | 8.0 | 16.6% | coding (646/1185 nt) | PP_0640 | conserved protein of unknown function |
| ? | JE3692‑4 | 750244 = | 71 (0.840) | coding (620/1185 nt) | PP_0640 | conserved protein of unknown function | |||||