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 46 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 | 51.9% | 4.3 / 124.3 | 77 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | JE3692‑4 | 1,927,172 | 0 | T | C | 44.4% | 25.1 / 25.3 | 36 | intergenic (+15/+46) | PP_1720/PP_1721 | Alcohol dehydrogenase, zinc‑containing/putative phosphoserine phosphatase |
| * | JE3692‑4 | 196,351 | 0 | C | G | 41.4% | 143.9 / 228.1 | 153 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 1,327,121 | 0 | C | T | 41.0% | 139.5 / 178.5 | 135 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | JE3692‑4 | 4,360,849 | 0 | A | G | 40.4% | 134.6 / 176.8 | 136 | intergenic (‑70/+404) | PP_3820/PP_3821 | Group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | JE3692‑4 | 2,184,200 | 0 | G | A | 36.5% | 131.8 / 43.1 | 90 | T268T (ACG→ACA) | PP_1931 | conserved protein of unknown function |
| * | JE3692‑4 | 195,634 | 0 | C | T | 33.9% | 301.8 / 188.0 | 180 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 196,390 | 0 | T | C | 33.3% | 199.1 / 128.4 | 129 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 196,327 | 0 | A | C | 32.4% | 193.3 / 152.6 | 140 | T611T (ACA→ACC) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 4,365,327 | 0 | C | G | 31.0% | 44.4 / 13.3 | 34 | G103G (GGC→GGG) | PP_3827 | 2‑nitropropane dioxygenase |
| * | JE3692‑4 | 2,184,203 | 0 | T | C | 30.5% | 150.5 / 50.8 | 95 | N269N (AAT→AAC) | PP_1931 | conserved protein of unknown function |
| * | JE3692‑4 | 5,301,739 | 0 | G | C | 29.5% | 126.5 / 31.2 | 63 | A244G (GCC→GGC) | PP_4663 | conserved transmembrane protein of unknown function |
| * | JE3692‑4 | 324,670 | 0 | C | T | 28.6% | 181.8 / 53.6 | 105 | intergenic (‑430/‑45) | PP_0267/PP_0268 | putative Outer membrane ferric siderophore receptor/outer‑membrane porin D |
| * | JE3692‑4 | 884,008 | 0 | A | G | 27.9% | 116.9 / 24.3 | 68 | intergenic (+246/‑82) | PP_0766/PP_0767 | conserved exported protein of unknown function/Transcriptional regulator, LuxR family |
| * | JE3692‑4 | 5,492,310 | 0 | A | C | 27.9% | 142.3 / 11.0 | 68 | L241L (CTA→CTC) | PP_4819 | conserved protein of unknown function |
| * | JE3692‑4 | 197,590 | 0 | T | C | 27.3% | 294.9 / 120.0 | 154 | D1032D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 681,281 | 0 | C | G | 27.0% | 79.1 / 13.6 | 38 | intergenic (+21/+48) | PP_0583/PP_0584 | Transcriptional regulator, AraC family/Methyl‑accepting chemotaxis transducer |
| * | JE3692‑4 | 1,592,599 | 0 | C | G | 27.0% | 48.5 / 13.2 | 41 | A65G (GCC→GGC) | PP_1397 | conserved protein of unknown function |
| * | JE3692‑4 | 1,904,632 | 0 | A | C | 27.0% | 157.7 / 15.0 | 78 | intergenic (+70/‑450) | PP_t18/PP_1703 | tRNA‑Asp/assimilatory nitrate reductase/sulfite reductase |
| * | JE3692‑4 | 2,337,857 | 0 | G | T | 26.9% | 149.6 / 15.9 | 67 | A257S (GCC→TCC) | PP_2049 | Alcohol dehydrogenase, iron‑containing |
| Marginal new junction evidence (lowest skew 10 of 756 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | JE3692‑4 | = 652783 | 99 (1.060) | 31 (0.520) | 18/128 | 3.1 | 49.4% | 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 = | 3 (0.030) | 35 (0.510) | 19/146 | 3.6 | 55.9% | intergenic (‑283/‑272) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | JE3692‑4 | 5999855 = | 53 (0.770) | intergenic (+73/‑473) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | JE3692‑4 | = 5999847 | 71 (0.760) | 18 (0.210) | 14/182 | 6.6 | 20.2% | intergenic (+65/‑481) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| ? | JE3692‑4 | 6000039 = | 77 (0.900) | intergenic (+257/‑289) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | JE3692‑4 | 171653 = | NA (NA) | 16 (0.170) | 14/194 | 7.0 | 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 | 173166 = | NA (NA) | 16 (0.170) | 13/196 | 7.5 | NA | intergenic (+256/‑37) | PP_16SA/PP_23SA | 16S ribosomal RNA/23S ribosomal RNA |
| ? | JE3692‑4 | 173218 = | NA (NA) | noncoding (16/2902 nt) | PP_23SA | 23S ribosomal RNA | |||||
| * | ? | JE3692‑4 | 5324891 = | NA (NA) | 14 (0.150) | 12/192 | 7.7 | 100% | intergenic (‑66/+648) | PP_16SG/PP_4675 | 16S ribosomal RNA/methionine sulfoxide reductase heme‑binding subunit |
| ? | JE3692‑4 | 5324919 = | 0 (0.000) | intergenic (‑94/+620) | PP_16SG/PP_4675 | 16S ribosomal RNA/methionine sulfoxide reductase heme‑binding subunit | |||||
| * | ? | JE3692‑4 | = 611136 | NA (NA) | 13 (0.140) | 12/192 | 7.7 | NA | noncoding (237/1314 nt) | mobile_element | repeat region |
| ? | JE3692‑4 | = 611169 | NA (NA) | noncoding (270/1314 nt) | mobile_element | repeat region | |||||
| * | ? | JE3692‑4 | 175871 = | NA (NA) | 14 (0.150) | 12/194 | 7.8 | NA | noncoding (2669/2902 nt) | PP_23SA | 23S ribosomal RNA |
| ? | JE3692‑4 | 175901 = | NA (NA) | noncoding (2699/2902 nt) | PP_23SA | 23S ribosomal RNA | |||||
| * | ? | JE3692‑4 | 173114 = | NA (NA) | 13 (0.150) | 11/186 | 7.8 | NA | intergenic (+204/‑89) | PP_16SA/PP_23SA | 16S ribosomal RNA/23S ribosomal RNA |
| ? | JE3692‑4 | 173156 = | NA (NA) | intergenic (+246/‑47) | PP_16SA/PP_23SA | 16S ribosomal RNA/23S ribosomal RNA | |||||
| * | ? | JE3692‑4 | 2556068 = | 36 (0.390) | 12 (0.140) | 11/188 | 7.9 | 16.4% | noncoding (39/76 nt) | PP_t36 | tRNA‑Ala |
| ? | JE3692‑4 | = 5323012 | 88 (0.990) | noncoding (32/76 nt) | PP_t51 | tRNA‑Ala | |||||