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 31 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | BS168_reference_genome | 608,214 | 1 | . | A | 52.2% | 23.5 / 37.4 | 23 | intergenic (‑139/+32) | ydgF/dinB | putative amino acid permease/nuclease inhibitor |
| * | BS168_reference_genome | 2,003,209 | 0 | T | G | 50.0% | 4.1 / 16.1 | 26 | intergenic (+27/+67) | iseA/trnSL‑Arg1 | inhibitor of DL‑endopeptidases involved in cell‑separation/tRNA‑Arg |
| * | BS168_reference_genome | 3,174,680 | 0 | A | C | 50.0% | ‑5.8 / 10.2 | 32 | noncoding (2239/2928 nt) | rrnB‑23S | ribosomal RNA‑23S |
| * | BS168_reference_genome | 2,003,218 | 0 | G | T | 44.4% | 21.9 / 13.3 | 27 | intergenic (+36/+58) | iseA/trnSL‑Arg1 | inhibitor of DL‑endopeptidases involved in cell‑separation/tRNA‑Arg |
| * | BS168_reference_genome | 824,692 | 0 | T | G | 41.4% | 21.4 / 11.2 | 29 | K9T (AAA→ACA) | fecE | iron‑dicitrate ABC transporter (permease) |
| * | BS168_reference_genome | 2,620,945 | 0 | C | G | 41.0% | 34.0 / 16.9 | 39 | L77V (CTT→GTT) | yqeW | putative Na+/anion cotransporter |
| * | BS168_reference_genome | 3,918,056 | 0 | A | T | 37.5% | 21.2 / 10.5 | 32 | V69E (GTA→GAA) | qoxA | cytochrome aa3‑600 quinol oxidase (subunit II) |
| * | BS168_reference_genome | 4,104,099 | 0 | A | C | 35.3% | 51.2 / 25.2 | 68 | L30R (CTG→CGG) | yxaJ | putative integral membrane protein of unknown function |
| * | BS168_reference_genome | 1,391,995 | 0 | A | C | 35.1% | 37.7 / 10.0 | 37 | I15L (ATC→CTC) | ykoG | two‑component response regulator [YkoH] |
| * | BS168_reference_genome | 2,044,439 | 0 | T | G | 34.8% | 42.2 / 18.0 | 48 | S134S (TCT→TCG) | yoaT | putative integral inner membrane protein |
| * | BS168_reference_genome | 4,209,038 | 0 | G | T | 31.5% | 85.9 / 12.2 | 54 | G184G (GGC→GGA) | rsmG | 7‑methylguanosine methyltransferase (16S rRNA, nucleotide G527) |
| * | BS168_reference_genome | 3,484,409 | 0 | T | A | 30.7% | 4.1 / 23.7 | 101 | Y353F (TAT→TTT) | araE | arabinose‑related compounds permease |
| * | BS168_reference_genome | 3,484,404 | 0 | C | A | 30.6% | 2.8 / 19.1 | 98 | E355* (GAG→TAG) | araE | arabinose‑related compounds permease |
| * | BS168_reference_genome | 966,468 | 0 | T | G | 30.6% | 44.0 / 10.8 | 36 | S68R (AGC→CGC) | ygaO | putative integral inner membrane protein |
| * | BS168_reference_genome | 608,214 | 0 | G | A | 30.0% | 18.2 / 10.8 | 25 | intergenic (‑139/+32) | ydgF/dinB | putative amino acid permease/nuclease inhibitor |
| * | BS168_reference_genome | 3,644,681 | 0 | G | T | 28.1% | 116.0 / 14.0 | 57 | Q206K (CAA→AAA) | degU | two‑component response regulator |
| * | BS168_reference_genome | 3,484,365 | 0 | C | A | 27.6% | 6.0 / 11.6 | 87 | G368C (GGT→TGT) | araE | arabinose‑related compounds permease |
| * | BS168_reference_genome | 4,068,146 | 0 | T | A | 27.0% | 35.9 / 11.8 | 37 | *322K (TAA→AAA) | frxB | desferrioxamine‑and ferrichrome‑binding transporter lipoprotein (shuttle system) |
| * | BS168_reference_genome | 194,891 | 0 | G | C | 26.4% | 87.8 / 12.7 | 53 | G15R (GGC→CGC) | sigW | RNA polymerase ECF(extracytoplasmic function)‑type sigma factor W |
| * | BS168_reference_genome | 608,219 | 1 | . | C | 26.1% | 45.3 / 17.4 | 23 | intergenic (‑144/+27) | ydgF/dinB | putative amino acid permease/nuclease inhibitor |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | BS168_reference_genome | 9457 = | 63 (1.030) | 2508 (42.870) | 6/242 | 3.7 | 97.2% | coding (2464/2466 nt) | gyrA | DNA gyrase (subunit A) |
| ? | BS168_reference_genome | 3484075 = | 87 (1.490) | coding (1392/1395 nt) | araE | arabinose‑related compounds permease | |||||
| * | ? | BS168_reference_genome | 3353574 = | 57 (0.930) | 3 (0.050) +AG |
3/250 | 5.1 | 5.1% | coding (334/1119 nt) | dadA | D‑amino acid oxidase |
| ? | BS168_reference_genome | = 3484371 | NA (NA) | coding (1096/1395 nt) | araE | arabinose‑related compounds permease | |||||
| * | ? | pSIJ663_pHT315_araE_xy | = 5614 | 2 (0.000) | 14 (0.000) | 13/248 | 9.5 | 77.9% | intergenic (+883/–) | ampR/– | –/– |
| ? | pSIJ663_pHT315_araE_xy | 9532 = | 6 (0.000) | intergenic (+4801/–) | ampR/– | –/– | |||||
| * | ? | pSIJ663_pHT315_araE_xy | = 1838 | 14830 (2.090) | 7 (0.000) | 7/250 | 11.7 | 0.060% | intergenic (–/‑1140) | –/eryR | –/– |
| ? | pSIJ663_pHT315_araE_xy | 2572 = | 8634 (1.240) | intergenic (–/‑406) | –/eryR | –/– | |||||