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 30 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 | 60.8% | ‑1.7 / 85.1 | 74 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | JE3692‑4 | 3,636,954 | 0 | G | C | 50.0% | ‑2.4 / 18.3 | 25 | G226G (GGC→GGG) | PP_3195 | conserved protein of unknown function |
| * | JE3692‑4 | 195,634 | 0 | C | T | 42.1% | 145.6 / 171.4 | 122 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 4,360,849 | 0 | A | G | 40.0% | 67.0 / 97.0 | 75 | intergenic (‑70/+404) | PP_3820/PP_3821 | Group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | JE3692‑4 | 3,324,819 | 0 | C | G | 36.0% | 32.8 / 15.3 | 27 | intergenic (+16/‑146) | PP_2912/PP_2913 | conserved protein of unknown function/5‑aminolevulinate dehydratase |
| * | JE3692‑4 | 699,722 | 0 | A | G | 35.9% | 57.7 / 58.0 | 53 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | JE3692‑4 | 5,687,669 | 0 | G | C | 34.0% | 76.0 / 27.1 | 49 | A471G (GCG→GGG) | PP_4983 | putative amine oxidase |
| * | JE3692‑4 | 2,184,203 | 0 | T | C | 33.3% | 87.8 / 27.2 | 54 | N269N (AAT→AAC) | PP_1931 | conserved protein of unknown function |
| * | JE3692‑4 | 196,351 | 0 | C | G | 30.5% | 213.6 / 153.2 | 141 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 278,754 | 0 | A | C | 30.4% | 78.8 / 12.9 | 46 | intergenic (‑249/+65) | PP_0224/PP_0225 | Monooxygenase, DszC family/sulfur compound ABC transporter ‑ ATP‑binding subunit |
| * | JE3692‑4 | 195,559 | 0 | C | A | 30.1% | 163.7 / 82.2 | 83 | T355T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 2,982,613 | 0 | C | A | 27.9% | 86.4 / 10.1 | 43 | intergenic (+101/+48) | PP_2603/PP_2604 | conserved protein of unknown function/major facilitator family transporter |
| * | JE3692‑4 | 196,390 | 0 | T | C | 27.4% | 198.9 / 94.7 | 117 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 884,008 | 0 | A | G | 27.3% | 87.1 / 22.6 | 55 | intergenic (+246/‑82) | PP_0766/PP_0767 | conserved exported protein of unknown function/Transcriptional regulator, LuxR family |
| * | JE3692‑4 | 196,327 | 0 | A | C | 25.5% | 261.3 / 123.8 | 146 | T611T (ACA→ACC) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 2,504,485 | 0 | G | C | 24.2% | 77.4 / 10.6 | 34 | A252P (GCC→CCC) | PP_2193 | Outer membrane ferric siderophore receptor |
| * | JE3692‑4 | 1,752,977 | 0 | C | G | 24.0% | 133.0 / 17.3 | 51 | R55P (CGC→CCC) | PP_5473 | putative transcriptional regulator, LuxR family |
| * | JE3692‑4 | 5,797,560 | 0 | C | G | 23.9% | 103.6 / 17.4 | 47 | intergenic (+27/‑104) | PP_5068/PP_5069 | conserved protein of unknown function, UPF0061 family/Thioredoxin 2 |
| * | JE3692‑4 | 4,341,111 | 0 | A | C | 23.5% | 80.2 / 12.3 | 34 | D72A (GAC→GCC) | PP_3799 | conserved exported protein of unknown function |
| * | JE3692‑4 | 4,806,098 | 0 | C | G | 23.1% | 120.1 / 17.3 | 57 | intergenic (‑115/+41) | PP_4221/PP_4222 | non‑ribosomal peptide synthetase (subunit of ferribactin synthase)/putative SyrP protein |
| Marginal new junction evidence (lowest skew 10 of 163 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | JE3692‑4 | = 652783 | 64 (1.010) | 9 (0.220) | 8/128 | 4.1 | 30.3% | 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 | 611559 = | NA (NA) | 10 (0.160) | 10/192 | 5.6 | NA | noncoding (660/1314 nt) | mobile_element | repeat region |
| ? | JE3692‑4 | 611591 = | NA (NA) | noncoding (692/1314 nt) | mobile_element | repeat region | |||||
| * | ? | JE3692‑4 | = 5213711 | 31 (0.490) | 9 (0.150) | 9/192 | 6.0 | 24.6% | intergenic (‑53/‑127) | PP_4582/PP_4583 | conserved membrane protein of unknown function/putative Peptidase |
| ? | JE3692‑4 | 5213810 = | 25 (0.410) | intergenic (‑152/‑28) | PP_4582/PP_4583 | conserved membrane protein of unknown function/putative Peptidase | |||||
| * | ? | JE3692‑4 | = 2556265 | NA (NA) | 10 (0.170) | 8/186 | 6.2 | 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) | 10 (0.170) | 8/186 | 6.2 | 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 | 5556623 = | NA (NA) | 9 (0.150) | 8/188 | 6.3 | 82.6% | intergenic (‑687/+190) | PP_4877/PP_4879 | 30S ribosomal protein S6/23S rRNA (guanosine‑2'‑O‑)‑methyltransferase RlmB |
| ? | JE3692‑4 | 5556649 = | 2 (0.030) | intergenic (‑713/+164) | PP_4877/PP_4879 | 30S ribosomal protein S6/23S rRNA (guanosine‑2'‑O‑)‑methyltransferase RlmB | |||||
| * | ? | JE3692‑4 | = 2931154 | 0 (0.000) | 9 (0.150) | 8/188 | 6.3 | 100% | intergenic (‑270/+295) | PP_2563/PP_2564 | putative Antibiotic biosynthesis protein/putative Quercetin 2,3‑dioxygenase |
| ? | JE3692‑4 | = 2931180 | NA (NA) | intergenic (‑296/+269) | PP_2563/PP_2564 | putative Antibiotic biosynthesis protein/putative Quercetin 2,3‑dioxygenase | |||||
| * | ? | JE3692‑4 | 1297692 = | NA (NA) | 9 (0.150) | 8/192 | 6.4 | 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) | 13 (0.210) | 8/192 | 6.4 | NA | noncoding (237/1314 nt) | mobile_element | repeat region |
| ? | JE3692‑4 | = 611169 | NA (NA) | noncoding (270/1314 nt) | mobile_element | repeat region | |||||
| * | ? | JE3692‑4 | 173993 = | NA (NA) | 9 (0.140) | 8/196 | 6.5 | NA | noncoding (791/2902 nt) | PP_23SA | 23S ribosomal RNA |
| ? | JE3692‑4 | 174022 = | NA (NA) | noncoding (820/2902 nt) | PP_23SA | 23S ribosomal RNA | |||||