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 46 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | BS168_reference_genome | 1,349,495 | 0 | G | T | 42.4% | 135.3 / 290.8 | 196 | A325A (GCC→GCA) | pitB | putative low‑affinity inorganic phosphate transporter |
| * | BS168_reference_genome | 3,174,612 | 0 | T | C | 37.9% | 0.2 / 20.9 | 93 | noncoding (2307/2928 nt) | rrnB‑23S | ribosomal RNA‑23S |
| * | BS168_reference_genome | 3,174,667 | 0 | T | C | 37.9% | 0.2 / 44.7 | 142 | noncoding (2252/2928 nt) | rrnB‑23S | ribosomal RNA‑23S |
| * | BS168_reference_genome | 3,174,599 | 0 | A | C | 36.9% | 0.3 / 24.2 | 85 | noncoding (2320/2928 nt) | rrnB‑23S | ribosomal RNA‑23S |
| * | BS168_reference_genome | 3,174,618 | 0 | A | C | 35.4% | 2.9 / 21.0 | 102 | noncoding (2301/2928 nt) | rrnB‑23S | ribosomal RNA‑23S |
| * | BS168_reference_genome | 3,174,581 | 0 | T | C | 32.4% | 0.0 / 11.5 | 75 | noncoding (2338/2928 nt) | rrnB‑23S | ribosomal RNA‑23S |
| * | BS168_reference_genome | 3,174,564 | 0 | A | C | 30.6% | 0.3 / 11.7 | 64 | noncoding (2355/2928 nt) | rrnB‑23S | ribosomal RNA‑23S |
| * | BS168_reference_genome | 1,346,705 | 0 | A | G | 30.1% | 500.3 / 64.4 | 299 | intergenic (+27/‑26) | xepA/xhlA | phage PBSX; lytic exoenzyme/phage PBSX; putative enzyme |
| * | BS168_reference_genome | 2,989,826 | 0 | T | C | 28.6% | 201.6 / 23.7 | 130 | intergenic (‑261/+74) | accD/maeB | acetyl‑CoA carboxylase (carboxyltransferase beta subunit)/NADP‑dependent malic enzyme (conversion of malate into pyruvate, anabolic) |
| * | BS168_reference_genome | 3,174,647 | 0 | A | C | 28.2% | 10.3 / 21.7 | 133 | noncoding (2272/2928 nt) | rrnB‑23S | ribosomal RNA‑23S |
| * | BS168_reference_genome | 2,989,829 | 0 | G | C | 28.2% | 149.7 / 15.1 | 128 | intergenic (‑264/+71) | accD/maeB | acetyl‑CoA carboxylase (carboxyltransferase beta subunit)/NADP‑dependent malic enzyme (conversion of malate into pyruvate, anabolic) |
| * | BS168_reference_genome | 1,253,156 | 0 | T | G | 27.6% | 577.7 / 69.8 | 262 | G18G (GGT→GGG) | yjcZ | putative type I toxin |
| * | BS168_reference_genome | 1,253,180 | 0 | C | G | 27.4% | 466.7 / 69.4 | 235 | G26G (GGC→GGG) | yjcZ | putative type I toxin |
| * | BS168_reference_genome | 100,395 | 0 | T | G | 27.1% | 102.2 / 28.7 | 71 | noncoding (2286/2928 nt) | rrnW‑23S | ribosomal RNA‑23S |
| * | BS168_reference_genome | 2,625,646 | 0 | A | C | 26.8% | 682.1 / 56.3 | 311 | G89G (GGT→GGG) | dnaJ | co‑factor of molecular chaperone |
| * | BS168_reference_genome | 3,174,625 | 0 | A | G | 26.7% | 7.0 / 18.3 | 102 | noncoding (2294/2928 nt) | rrnB‑23S | ribosomal RNA‑23S |
| * | BS168_reference_genome | 3,588,421 | 0 | T | C | 26.7% | 599.0 / 58.1 | 323 | I314V (ATC→GTC) | hisZ | histidyl‑tRNA synthetase‑like subunit of ATP phophoribosyltransferase |
| * | BS168_reference_genome | 3,174,654 | 0 | A | C | 25.9% | 11.9 / 17.4 | 140 | noncoding (2265/2928 nt) | rrnB‑23S | ribosomal RNA‑23S |
| * | BS168_reference_genome | 3,174,609 | 0 | G | C | 25.5% | 6.6 / 16.8 | 94 | noncoding (2310/2928 nt) | rrnB‑23S | ribosomal RNA‑23S |
| * | BS168_reference_genome | 100,361 | 0 | A | G | 24.8% | 226.1 / 21.5 | 129 | noncoding (2252/2928 nt) | rrnW‑23S | ribosomal RNA‑23S |
| Marginal new junction evidence (lowest skew 10 of 13 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | BS168_reference_genome | = 2344012 | 116 (0.350) | 76 (0.240) | 66/282 | 5.7 | 40.8% | coding (2569/2745 nt) | ponA | peptidoglycan glycosyltransferase (penicillin‑binding proteins 1A and 1B) |
| ? | BS168_reference_genome | 2344052 = | 111 (0.360) | coding (2609/2745 nt) | ponA | peptidoglycan glycosyltransferase (penicillin‑binding proteins 1A and 1B) | |||||
| * | ? | BS168_reference_genome | 946697 = | NA (NA) | 276 (0.840) +G |
7/296 | 18.0 | 52.2% | noncoding (2/1555 nt) | rrnD‑16S | ribosomal RNA‑16S |
| ? | BS168_reference_genome | 3178705 = | 254 (0.770) | intergenic (‑65/‑601) | rrnB‑16S/thiT | ribosomal RNA‑16S/thiamin permease | |||||
| * | ? | BS168_reference_genome | = 944791 | 272 (0.820) | 6 (0.020) | 6/298 | 18.6 | 2.1% | coding (305/438 nt) | perR | transcriptional regulator (Fur family) |
| ? | BS168_reference_genome | 944924 = | 285 (0.860) | coding (438/438 nt) | perR | transcriptional regulator (Fur family) | |||||
| * | ? | BS168_reference_genome | 35232 = | 305 (0.920) | 457 (1.460) +TGAGAGTG |
4/282 | 19.4 | 63.3% | intergenic (+129/‑5) | rrnA‑23S/rrnA‑5S | ribosomal RNA‑23S/ribosomal RNA‑5S |
| ? | BS168_reference_genome | = 951387 | 254 (0.770) | intergenic (+42/‑70) | rrnD‑23S/rrnD‑5S | ribosomal RNA‑23S/ribosomal RNA‑5S | |||||
| * | ? | BS168_reference_genome | 3933706 = | 442 (1.340) | 3 (0.010) | 3/280 | 20.0 | 0.71% | coding (130/678 nt) | cidB | metabolic regulator controlling activity of murein hydrolases |
| ? | BS168_reference_genome | = 3933702 | 421 (1.360) | coding (126/678 nt) | cidB | metabolic regulator controlling activity of murein hydrolases | |||||
| * | ? | BS168_reference_genome | 3683219 = | 456 (1.380) | 3 (0.010) | 3/282 | 20.0 | 0.73% | coding (1047/1146 nt) | tagB | teichoic acid primase, CDP‑glycerol:N‑acetyl‑beta‑d‑mannosaminyl‑1, 4‑N‑acetyl‑d‑glucosaminyldiphosphoundecaprenyl glycerophosphotransferase |
| ? | BS168_reference_genome | 3683258 = | 390 (1.250) | coding (1086/1146 nt) | tagB | teichoic acid primase, CDP‑glycerol:N‑acetyl‑beta‑d‑mannosaminyl‑1, 4‑N‑acetyl‑d‑glucosaminyldiphosphoundecaprenyl glycerophosphotransferase | |||||
| * | ? | BS168_reference_genome | = 2458690 | 420 (1.270) | 3 (0.010) | 3/294 | 20.3 | 0.72% | coding (377/558 nt) | nudF | isopentenyl pyrophosphate and dimethylallyl pyrophosphate diphosphatase (moonlighting ADP‑ribose pyrophosphatase) |
| ? | BS168_reference_genome | 2458695 = | 413 (1.270) | coding (372/558 nt) | nudF | isopentenyl pyrophosphate and dimethylallyl pyrophosphate diphosphatase (moonlighting ADP‑ribose pyrophosphatase) | |||||
| * | ? | BS168_reference_genome | = 428434 | 365 (1.100) | 3 (0.010) | 3/296 | 20.3 | 0.82% | coding (1188/1422 nt) | yclK | two‑component sensor histidine kinase [YclJ] |
| ? | BS168_reference_genome | 428440 = | 363 (1.110) | coding (1194/1422 nt) | yclK | two‑component sensor histidine kinase [YclJ] | |||||
| * | ? | BS168_reference_genome | = 1650535 | 234 (0.710) | 3 (0.010) | 3/298 | 20.4 | 1.3% | coding (152/765 nt) | prpC | multitarget phosphorylated protein phosphatase |
| ? | BS168_reference_genome | 1650653 = | 226 (0.680) | coding (270/765 nt) | prpC | multitarget phosphorylated protein phosphatase | |||||
| * | ? | Exported | = 3999 | 9100 (1.070) | 13 (0.000) | 10/294 | 24.5 | 0.15% | coding (129/861 nt) | ampR | /vntifkey=4 |
| ? | Exported | 4255 = | 8763 (1.040) | coding (385/861 nt) | ampR | /vntifkey=4 | |||||