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 | 1,327,121 | 0 | C | T | 61.3% | 12.5 / 172.5 | 144 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | JE3692‑4 | 699,722 | 0 | A | G | 52.4% | ‑2.1 / 127.0 | 82 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | JE3692‑4 | 4,365,337 | 0 | A | C | 52.0% | 12.5 / 29.5 | 25 | T107P (ACG→CCG) | PP_3827 | 2‑nitropropane dioxygenase |
| * | JE3692‑4 | 4,360,849 | 0 | A | G | 47.5% | 52.5 / 187.2 | 120 | intergenic (‑70/+404) | PP_3820/PP_3821 | Group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | JE3692‑4 | 195,634 | 0 | C | T | 39.4% | 219.6 / 200.0 | 161 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 1,927,172 | 0 | T | C | 37.9% | 77.6 / 27.6 | 58 | intergenic (+15/+46) | PP_1720/PP_1721 | Alcohol dehydrogenase, zinc‑containing/putative phosphoserine phosphatase |
| * | JE3692‑4 | 196,351 | 0 | C | G | 36.8% | 159.0 / 189.6 | 144 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 884,008 | 0 | A | G | 36.6% | 84.2 / 40.1 | 71 | intergenic (+246/‑82) | PP_0766/PP_0767 | conserved exported protein of unknown function/Transcriptional regulator, LuxR family |
| * | JE3692‑4 | 2,184,200 | 0 | G | A | 35.0% | 140.0 / 35.1 | 90 | T268T (ACG→ACA) | PP_1931 | conserved protein of unknown function |
| * | JE3692‑4 | 2,184,203 | 0 | T | C | 34.7% | 133.5 / 60.2 | 95 | N269N (AAT→AAC) | PP_1931 | conserved protein of unknown function |
| * | JE3692‑4 | 5,999,981 | 0 | T | C | 33.8% | 144.8 / 62.9 | 82 | intergenic (+199/‑347) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | JE3692‑4 | 5,999,970 | 0 | C | T | 33.7% | 150.2 / 81.7 | 84 | intergenic (+188/‑358) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | JE3692‑4 | 196,390 | 0 | T | C | 33.6% | 171.1 / 120.5 | 122 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 884,007 | 0 | C | T | 33.3% | 96.2 / 21.6 | 71 | intergenic (+245/‑83) | PP_0766/PP_0767 | conserved exported protein of unknown function/Transcriptional regulator, LuxR family |
| * | JE3692‑4 | 5,999,971 | 0 | A | G | 33.3% | 161.2 / 81.6 | 84 | intergenic (+189/‑357) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | JE3692‑4 | 5,999,987 | 0 | A | . | 32.6% | 228.2 / 118.9 | 86 | intergenic (+205/‑341) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | JE3692‑4 | 5,999,965 | 0 | C | A | 32.1% | 168.0 / 82.2 | 81 | intergenic (+183/‑363) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | JE3692‑4 | 884,005 | 0 | C | T | 31.9% | 92.0 / 36.5 | 69 | intergenic (+243/‑85) | PP_0766/PP_0767 | conserved exported protein of unknown function/Transcriptional regulator, LuxR family |
| * | JE3692‑4 | 2,063,497 | 0 | T | G | 30.8% | 120.0 / 21.5 | 65 | intergenic (+81/+47) | PP_1832/PP_1833 | putative Oxidase/conserved protein of unknown function |
| * | JE3692‑4 | 1,752,977 | 0 | C | G | 30.3% | 69.6 / 15.1 | 35 | R55P (CGC→CCC) | PP_5473 | putative transcriptional regulator, LuxR family |
| Marginal new junction evidence (lowest skew 10 of 880 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | JE3692‑4 | 4820318 = | 0 (0.000) | 23 (0.360) | 14/144 | 4.7 | 54.1% | intergenic (‑283/‑272) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | JE3692‑4 | 5999855 = | 39 (0.610) | intergenic (+73/‑473) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | JE3692‑4 | = 652783 | 100 (1.140) | 19 (0.340) | 11/126 | 4.8 | 37.1% | 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 | = 175970 | NA (NA) | 16 (0.200) | 12/182 | 6.9 | 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 | 172301 = | NA (NA) | 18 (0.210) | 12/188 | 7.2 | 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 | 171518 = | NA (NA) | 14 (0.160) | 12/194 | 7.4 | NA | noncoding (130/1522 nt) | PP_16SA | 16S ribosomal RNA |
| ? | JE3692‑4 | 171538 = | NA (NA) | noncoding (150/1522 nt) | PP_16SA | 16S ribosomal RNA | |||||
| * | ? | JE3692‑4 | 3378697 = | 93 (1.060) | 12 (0.140) | 12/196 | 7.5 | 13.5% | intergenic (+219/‑142) | PP_2962/PP_2964 | Alcohol dehydrogenase, zinc‑containing/putative transposase |
| ? | JE3692‑4 | 3754910 = | 61 (0.700) | coding (66/381 nt) | PP_3307 | conserved protein of unknown function | |||||
| * | ? | JE3692‑4 | = 4086430 | NA (NA) | 15 (0.220) +23 bp |
7/150 | 7.7 | 18.9% | noncoding (610/2058 nt) | mobile_element | repeat region |
| ? | JE3692‑4 | = 5556444 | 84 (0.960) | intergenic (‑508/+369) | PP_4877/PP_4879 | 30S ribosomal protein S6/23S rRNA (guanosine‑2'‑O‑)‑methyltransferase RlmB | |||||
| * | ? | JE3692‑4 | = 4086430 | NA (NA) | 15 (0.220) +23 bp |
7/150 | 7.7 | 49.5% | noncoding (610/2058 nt) | mobile_element | repeat region |
| ? | JE3692‑4 | = 5234773 | 20 (0.230) | noncoding (67/2051 nt) | mobile_element | repeat region | |||||
| * | ? | JE3692‑4 | = 4085891 | 39 (0.440) | 15 (0.220) +23 bp |
7/150 | 7.7 | 33.5% | noncoding (71/2058 nt) | mobile_element | repeat region |
| ? | JE3692‑4 | = 4086430 | NA (NA) | noncoding (610/2058 nt) | mobile_element | repeat region | |||||
| * | ? | JE3692‑4 | = 3838453 | 27 (0.310) | 15 (0.220) +23 bp |
7/150 | 7.7 | 42.1% | noncoding (62/2042 nt) | mobile_element | repeat region |
| ? | JE3692‑4 | = 3838992 | NA (NA) | noncoding (601/2042 nt) | mobile_element | repeat region | |||||