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 48 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 | 57.1% | 4.6 / 109.2 | 77 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | JE3692‑4 | 1,327,121 | 0 | C | T | 51.2% | 55.1 / 199.1 | 129 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | JE3692‑4 | 4,365,337 | 0 | A | C | 48.8% | 18.0 / 20.3 | 41 | T107P (ACG→CCG) | PP_3827 | 2‑nitropropane dioxygenase |
| * | JE3692‑4 | 4,360,849 | 0 | A | G | 45.7% | 70.4 / 195.4 | 129 | intergenic (‑70/+404) | PP_3820/PP_3821 | Group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | JE3692‑4 | 1,592,599 | 0 | C | G | 38.2% | 33.1 / 21.7 | 35 | A65G (GCC→GGC) | PP_1397 | conserved protein of unknown function |
| * | JE3692‑4 | 195,634 | 0 | C | T | 38.2% | 269.0 / 229.5 | 186 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 2,184,203 | 0 | T | C | 35.1% | 105.8 / 50.7 | 77 | N269N (AAT→AAC) | PP_1931 | conserved protein of unknown function |
| * | JE3692‑4 | 4,977,015 | 0 | C | A | 34.3% | 128.2 / 107.8 | 99 | V163L (GTG→TTG) | PP_4373 | Transcriptional regulator FleQ |
| * | JE3692‑4 | 196,351 | 0 | C | G | 32.4% | 313.7 / 259.3 | 222 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 3,865,271 | 0 | G | C | 32.0% | 94.6 / 28.6 | 51 | S172T (AGC→ACC) | PP_3400 | alpha‑ketoglutarate‑ and Fe(II)‑dependent dioxygenase |
| * | JE3692‑4 | 196,390 | 0 | T | C | 31.5% | 262.8 / 151.3 | 163 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 353,600 | 0 | C | T | 31.3% | 112.7 / 45.8 | 87 | G244S (GGT→AGT) | PP_0294 | choline / betaine / carnitine ABC transporter ‑ ATP binding subunit |
| * | JE3692‑4 | 2,184,200 | 0 | G | A | 28.8% | 138.9 / 20.5 | 75 | T268T (ACG→ACA) | PP_1931 | conserved protein of unknown function |
| * | JE3692‑4 | 2,184,204 | 0 | G | C | 28.8% | 159.7 / 35.1 | 77 | V270L (GTC→CTC) | PP_1931 | conserved protein of unknown function |
| * | JE3692‑4 | 1,541,581 | 0 | C | T | 28.1% | 162.6 / 40.9 | 94 | intergenic (‑57/‑44) | PP_1351/PP_1352 | putative 2‑dehydropantoate 2‑reductase/UPF0234 protein PP_1352 |
| * | JE3692‑4 | 3,636,954 | 0 | G | C | 28.0% | 75.9 / 22.8 | 54 | G226G (GGC→GGG) | PP_3195 | conserved protein of unknown function |
| * | JE3692‑4 | 324,670 | 0 | C | T | 27.3% | 195.2 / 52.8 | 110 | intergenic (‑430/‑45) | PP_0267/PP_0268 | putative Outer membrane ferric siderophore receptor/outer‑membrane porin D |
| * | JE3692‑4 | 5,615,093 | 0 | C | G | 27.3% | 202.9 / 35.0 | 94 | G91R (GGT→CGT) | PP_4925 | conserved protein of unknown function |
| * | JE3692‑4 | 196,327 | 0 | A | C | 26.2% | 391.1 / 192.0 | 225 | T611T (ACA→ACC) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 5,999,981 | 0 | T | C | 26.0% | 238.9 / 65.7 | 101 | intergenic (+199/‑347) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| Marginal new junction evidence (lowest skew 10 of 827 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | JE3692‑4 | = 652783 | 74 (0.710) | 28 (0.420) | 15/126 | 4.2 | 54.1% | 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 | = 2556265 | NA (NA) | 17 (0.170) | 13/184 | 7.3 | 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) | 17 (0.170) | 13/184 | 7.3 | 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 | = 174585 | NA (NA) | 12 (0.120) | 11/190 | 8.3 | NA | noncoding (1383/2902 nt) | PP_23SA | 23S ribosomal RNA |
| ? | JE3692‑4 | = 174628 | NA (NA) | noncoding (1426/2902 nt) | PP_23SA | 23S ribosomal RNA | |||||
| * | ? | JE3692‑4 | = 611115 | NA (NA) | 13 (0.130) | 10/186 | 8.6 | NA | noncoding (216/1314 nt) | mobile_element | repeat region |
| ? | JE3692‑4 | = 611138 | NA (NA) | noncoding (239/1314 nt) | mobile_element | repeat region | |||||
| * | ? | JE3692‑4 | = 4820320 | 14 (0.130) | 11 (0.120) | 9/180 | 8.8 | 19.3% | intergenic (‑285/‑270) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | JE3692‑4 | 4820424 = | 79 (0.830) | intergenic (‑389/‑166) | PP_4234/PP_4235 | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | JE3692‑4 | = 5999833 | 96 (0.920) | 10 (0.100) | 8/180 | 9.2 | 11.8% | intergenic (+51/‑495) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| ? | JE3692‑4 | 6000055 = | 61 (0.640) | intergenic (+273/‑273) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | JE3692‑4 | 171653 = | NA (NA) | 11 (0.110) | 9/192 | 9.2 | 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 | = 175970 | NA (NA) | 16 (0.170) | 8/182 | 9.3 | 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 | 173114 = | NA (NA) | 12 (0.120) | 8/184 | 9.4 | 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 | |||||