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 55 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | JE3692‑4 | 4,820,324 | 0 | A | C | 62.5% | 7.0 / 33.1 | 32 | intergenic (‑289/‑266) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | JE3692‑4 | 4,820,325 | 0 | A | G | 62.5% | 2.5 / 36.4 | 32 | intergenic (‑290/‑265) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | JE3692‑4 | 4,820,330 | 0 | C | T | 55.2% | 0.3 / 37.0 | 29 | intergenic (‑295/‑260) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | JE3692‑4 | 4,820,331 | 0 | G | T | 55.2% | 3.8 / 40.6 | 29 | intergenic (‑296/‑259) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| * | JE3692‑4 | 1,327,121 | 0 | C | T | 52.1% | 90.6 / inf | 199 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | JE3692‑4 | 4,360,849 | 0 | A | G | 48.8% | 53.1 / 266.5 | 162 | intergenic (‑70/+404) | PP_3820/PP_3821 | Group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | JE3692‑4 | 699,722 | 0 | A | G | 45.7% | 51.2 / 139.3 | 94 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | JE3692‑4 | 195,634 | 0 | C | T | 40.0% | 266.2 / 265.1 | 200 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 196,351 | 0 | C | G | 35.4% | 391.1 / inf | 274 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 4,864,590 | 0 | C | A | 34.0% | 78.2 / 22.1 | 54 | intergenic (‑117/+180) | PP_4267/PP_4268 | Recombination protein RecR/nucleoid‑associated broad specificity regulator |
| * | JE3692‑4 | 4,864,581 | 0 | C | T | 33.8% | 116.5 / 25.5 | 68 | intergenic (‑108/+189) | PP_4267/PP_4268 | Recombination protein RecR/nucleoid‑associated broad specificity regulator |
| * | JE3692‑4 | 324,670 | 0 | C | T | 33.3% | 198.5 / 83.3 | 138 | intergenic (‑430/‑45) | PP_0267/PP_0268 | putative Outer membrane ferric siderophore receptor/outer‑membrane porin D |
| * | JE3692‑4 | 1,927,172 | 0 | T | C | 32.8% | 102.9 / 20.4 | 58 | intergenic (+15/+46) | PP_1720/PP_1721 | Alcohol dehydrogenase, zinc‑containing/putative phosphoserine phosphatase |
| * | JE3692‑4 | 196,390 | 0 | T | C | 30.0% | 361.1 / 186.8 | 204 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 2,184,203 | 0 | T | C | 28.7% | 243.7 / 70.0 | 143 | N269N (AAT→AAC) | PP_1931 | conserved protein of unknown function |
| * | JE3692‑4 | 5,999,981 | 0 | T | C | 28.0% | 211.5 / 70.5 | 100 | intergenic (+199/‑347) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | JE3692‑4 | 2,184,200 | 0 | G | A | 27.8% | 259.6 / 47.7 | 143 | T268T (ACG→ACA) | PP_1931 | conserved protein of unknown function |
| * | JE3692‑4 | 196,327 | 0 | A | C | 27.7% | 495.2 / 252.3 | 274 | T611T (ACA→ACC) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 5,999,987 | 0 | A | . | 27.7% | 285.2 / 116.7 | 101 | intergenic (+205/‑341) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | JE3692‑4 | 2,645,813 | 0 | A | G | 27.4% | 193.7 / 12.9 | 84 | L159P (CTG→CCG) | PP_2310 | Methyl‑accepting chemotaxis transducer |
| Marginal new junction evidence (lowest skew 10 of 949 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | JE3692‑4 | = 652782 | 141 (1.100) | 52 (0.510) | 34/156 | 3.1 | 48.1% | coding (1961/1962 nt) | PP_0562 | Methyl‑accepting chemotaxis protein CtpL |
| ? | JE3692‑4 | = 4820303 | 0 (0.000) | intergenic (‑268/‑287) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | JE3692‑4 | = 4820323 | 12 (0.090) | 42 (0.370) | 26/172 | 5.4 | 48.7% | intergenic (‑288/‑267) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | JE3692‑4 | 5999841 = | 78 (0.690) | intergenic (+59/‑487) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | JE3692‑4 | = 4086430 | NA (NA) | 19 (0.200) +27 bp |
12/142 | 8.3 | 17.1% | noncoding (610/2058 nt) | mobile_element | repeat region |
| ? | JE3692‑4 | = 4314512 | 127 (0.990) | intergenic (+858/‑442) | PP_3774/PP_5627 | conserved protein of unknown function/protein of unknown function | |||||
| * | ? | JE3692‑4 | = 4086430 | NA (NA) | 25 (0.250) +23 bp |
13/150 | 8.4 | 22.4% | noncoding (610/2058 nt) | mobile_element | repeat region |
| ? | JE3692‑4 | = 5556444 | 113 (0.880) | intergenic (‑508/+369) | PP_4877/PP_4879 | 30S ribosomal protein S6/23S rRNA (guanosine‑2'‑O‑)‑methyltransferase RlmB | |||||
| * | ? | JE3692‑4 | = 4086430 | NA (NA) | 24 (0.240) +23 bp |
12/150 | 8.8 | 45.9% | noncoding (610/2058 nt) | mobile_element | repeat region |
| ? | JE3692‑4 | = 5234773 | 37 (0.290) | noncoding (67/2051 nt) | mobile_element | repeat region | |||||
| * | ? | JE3692‑4 | = 4085891 | 42 (0.330) | 24 (0.240) +23 bp |
12/150 | 8.8 | 42.8% | noncoding (71/2058 nt) | mobile_element | repeat region |
| ? | JE3692‑4 | = 4086430 | NA (NA) | noncoding (610/2058 nt) | mobile_element | repeat region | |||||
| * | ? | JE3692‑4 | = 3838453 | 30 (0.230) | 24 (0.240) +23 bp |
12/150 | 8.8 | 51.1% | noncoding (62/2042 nt) | mobile_element | repeat region |
| ? | JE3692‑4 | = 3838992 | NA (NA) | noncoding (601/2042 nt) | mobile_element | repeat region | |||||
| * | ? | JE3692‑4 | 2931359 = | 48 (0.370) | 24 (0.240) +23 bp |
12/150 | 8.8 | 39.5% | intergenic (‑475/+90) | PP_2563/PP_2564 | putative Antibiotic biosynthesis protein/putative Quercetin 2,3‑dioxygenase |
| ? | JE3692‑4 | = 2943558 | NA (NA) | noncoding (221/1674 nt) | mobile_element | repeat region | |||||
| * | ? | JE3692‑4 | 1441995 = | 41 (0.320) | 24 (0.240) +23 bp |
12/150 | 8.8 | 43.3% | noncoding (1996/2040 nt) | mobile_element | repeat region |
| ? | JE3692‑4 | = 2943558 | NA (NA) | noncoding (221/1674 nt) | mobile_element | repeat region | |||||
| * | ? | JE3692‑4 | 1298480 = | 52 (0.400) | 24 (0.240) +23 bp |
12/150 | 8.8 | 37.6% | noncoding (1996/2040 nt) | mobile_element | repeat region |
| ? | JE3692‑4 | = 2943558 | NA (NA) | noncoding (221/1674 nt) | mobile_element | repeat region | |||||