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 45 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 | 55.5% | ‑6.2 / 182.5 | 119 | intergenic (‑70/+404) | PP_3820/PP_3821 | Group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | JE3692‑4 | 1,327,121 | 0 | C | T | 52.7% | 28.0 / 117.0 | 76 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | JE3692‑4 | 699,722 | 0 | A | G | 44.0% | 26.8 / 69.7 | 50 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | JE3692‑4 | 1,927,172 | 0 | T | C | 41.9% | 33.0 / 30.1 | 43 | intergenic (+15/+46) | PP_1720/PP_1721 | Alcohol dehydrogenase, zinc‑containing/putative phosphoserine phosphatase |
| * | JE3692‑4 | 195,634 | 0 | C | T | 35.3% | 185.4 / 129.5 | 116 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 3,636,954 | 0 | G | C | 35.3% | 31.0 / 21.2 | 38 | G226G (GGC→GGG) | PP_3195 | conserved protein of unknown function |
| * | JE3692‑4 | 975,217 | 0 | T | G | 34.9% | 66.9 / 12.5 | 63 | intergenic (+66/+103) | PP_0837/PP_0838 | putative regulator of flagellation/inositol monophosphatase / glycerol‑2‑phosphatase |
| * | JE3692‑4 | 5,746,044 | 0 | G | C | 33.3% | 86.0 / 27.4 | 45 | G232G (GGC→GGG) | PP_5032 | Histidine ammonia‑lyase |
| * | JE3692‑4 | 1,102,681 | 0 | G | C | 32.6% | 80.5 / 25.9 | 46 | E41D (GAG→GAC) | PP_0962 | toluene‑tolerance protein |
| * | JE3692‑4 | 3,605,469 | 0 | C | G | 32.4% | 47.7 / 16.1 | 38 | R121G (CGC→GGC) | PP_3171 | conserved protein of unknown function |
| * | JE3692‑4 | 1,904,632 | 0 | A | C | 31.8% | 123.4 / 10.0 | 64 | intergenic (+70/‑450) | PP_t18/PP_1703 | tRNA‑Asp/assimilatory nitrate reductase/sulfite reductase |
| * | JE3692‑4 | 1,904,655 | 0 | A | C | 30.2% | 136.4 / 10.6 | 63 | intergenic (+93/‑427) | PP_t18/PP_1703 | tRNA‑Asp/assimilatory nitrate reductase/sulfite reductase |
| * | JE3692‑4 | 196,351 | 0 | C | G | 29.4% | 267.6 / 159.4 | 153 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 5,995,504 | 0 | A | G | 29.2% | 86.8 / 14.5 | 49 | intergenic (+24/+65) | PP_5242/PP_5243 | Sensor histidine kinase/GAF domain protein/putative hydrolase |
| * | JE3692‑4 | 1,927,187 | 0 | G | C | 28.6% | 51.3 / 15.7 | 40 | intergenic (+30/+31) | PP_1720/PP_1721 | Alcohol dehydrogenase, zinc‑containing/putative phosphoserine phosphatase |
| * | JE3692‑4 | 4,365,327 | 0 | C | G | 28.6% | 47.8 / 10.2 | 29 | G103G (GGC→GGG) | PP_3827 | 2‑nitropropane dioxygenase |
| * | JE3692‑4 | 363,987 | 0 | C | G | 27.4% | 136.6 / 27.8 | 63 | G183R (GGC→CGC) | PP_0303 | dehydrocarnitine cleavage enzyme |
| * | JE3692‑4 | 2,184,203 | 0 | T | C | 26.5% | 138.8 / 23.8 | 68 | N269N (AAT→AAC) | PP_1931 | conserved protein of unknown function |
| * | JE3692‑4 | 4,957,466 | 0 | G | C | 26.3% | 73.9 / 14.0 | 39 | intergenic (+682/+116) | PP_5673/PP_4352 | putative D‑alanine‑‑D‑alanine ligase/flagellin export apparatus, substrate specificity protein |
| * | JE3692‑4 | 2,184,200 | 0 | G | A | 25.9% | 137.1 / 13.2 | 66 | T268T (ACG→ACA) | PP_1931 | conserved protein of unknown function |
| Marginal new junction evidence (lowest skew 10 of 156 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | JE3692‑4 | = 652783 | 75 (1.000) | 17 (0.350) | 10/130 | 4.9 | 41.2% | 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 = | 0 (0.000) | 17 (0.310) | 10/148 | 5.8 | 42.5% | intergenic (‑283/‑272) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | JE3692‑4 | 5999855 = | 46 (0.830) | intergenic (+73/‑473) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | JE3692‑4 | = 2556265 | NA (NA) | 15 (0.210) | 11/188 | 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 | = 173119 | NA (NA) | 15 (0.210) | 11/188 | 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 | |||||
| * | ? | JE3692‑4 | = 175970 | NA (NA) | 12 (0.170) | 9/186 | 8.0 | 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 | = 5213711 | 36 (0.480) | 8 (0.110) | 8/194 | 8.8 | 21.4% | intergenic (‑53/‑127) | PP_4582/PP_4583 | conserved membrane protein of unknown function/putative Peptidase |
| ? | JE3692‑4 | 5213810 = | 24 (0.330) | intergenic (‑152/‑28) | PP_4582/PP_4583 | conserved membrane protein of unknown function/putative Peptidase | |||||
| * | ? | JE3692‑4 | 171518 = | NA (NA) | 8 (0.110) | 8/198 | 9.0 | 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 | 1298169 = | NA (NA) | 6 (0.090) | 6/188 | 9.7 | NA | noncoding (1685/2040 nt) | mobile_element | repeat region |
| ? | JE3692‑4 | 1298223 = | NA (NA) | noncoding (1739/2040 nt) | mobile_element | repeat region | |||||
| * | ? | JE3692‑4 | = 178786 | NA (NA) | 6 (0.080) | 6/190 | 9.8 | 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 | 2931096 = | NA (NA) | 33 (0.460) +ATGA |
6/192 | 9.9 | 33.9% | intergenic (‑212/+353) | PP_2563/PP_2564 | putative Antibiotic biosynthesis protein/putative Quercetin 2,3‑dioxygenase |
| ? | JE3692‑4 | = 5556745 | 67 (0.900) | intergenic (‑809/+68) | PP_4877/PP_4879 | 30S ribosomal protein S6/23S rRNA (guanosine‑2'‑O‑)‑methyltransferase RlmB | |||||