mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 34 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 3,054,894 | 0 | G | T | 38.1% | 113.2 / 37.7 | 97 | P184Q (CCA→CAA) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 2,477,265 | 0 | A | C | 36.9% | 129.8 / 35.5 | 84 | L122* (TTA→TGA) | dsdC | DNA‑binding transcriptional dual regulator DsdC |
| * | NC_000913 | 2,767,445 | 0 | C | A | 35.0% | 189.0 / 17.6 | 97 | intergenic (+90/‑265) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| * | NC_000913 | 4,296,191 | 0 | A | C | 34.6% | 58.0 / 38.3 | 52 | intergenic (+397/+245) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 2,159,415 | 0 | C | G | 34.4% | 61.7 / 12.2 | 37 | L344V (CTG→GTG) | mdtC | multidrug efflux pump RND permease subunit MdtC |
| * | NC_000913 | 3,054,886 | 0 | G | T | 31.6% | 159.8 / 32.6 | 95 | Q187K (CAA→AAA) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 2,244,442 | 0 | C | A | 30.4% | 140.6 / 14.6 | 79 | P178Q (CCG→CAG) | yeiG | S‑formylglutathione hydrolase/S‑lactoylglutathione hydrolase |
| * | NC_000913 | 1,756,353 | 0 | C | A | 30.0% | 148.8 / 12.3 | 90 | S219Y (TCC→TAC) | pykF | pyruvate kinase 1 |
| * | NC_000913 | 2,159,413 | 0 | C | T | 29.7% | 56.5 / 10.8 | 37 | A343V (GCG→GTG) | mdtC | multidrug efflux pump RND permease subunit MdtC |
| * | NC_000913 | 847,955 | 0 | G | A | 29.7% | 177.9 / 48.0 | 129 | A17V (GCG→GTG) | glnH | L‑glutamine ABC transporter periplasmic binding protein |
| * | NC_000913 | 225,579 | 0 | C | A | 29.5% | 156.6 / 17.8 | 122 | intergenic (+4/‑180) | alaV/rrlH | tRNA‑Ala/23S ribosomal RNA |
| * | NC_000913 | 58,065 | 0 | C | A | 29.3% | 222.1 / 18.1 | 116 | P234P (CCC→CCA) | djlA | co‑chaperone protein DjlA |
| * | NC_000913 | 3,269,948 | 0 | T | C | 28.6% | 129.4 / 10.7 | 77 | intergenic (+346/+268) | yhaC/rnpB | uncharacterized protein YhaC/RNase P catalytic RNA component |
| * | NC_000913 | 1,334,966 | 0 | A | C | 28.3% | 248.8 / 27.3 | 159 | intergenic (+137/‑182) | cysB/ymiA | DNA‑binding transcriptional dual regulator CysB/uncharacterized protein YmiA |
| * | NC_000913 | 141,849 | 0 | C | A | 28.2% | 245.4 / 12.2 | 124 | P140Q (CCG→CAG) | hpt | hypoxanthine phosphoribosyltransferase |
| * | NC_000913 | 4,136,467 | 0 | A | C | 27.5% | 150.1 / 19.9 | 81 | E120D (GAA→GAC) | yijE | cystine exporter |
| * | NC_000913 | 4,296,268 | 0 | T | C | 27.4% | 86.3 / 43.4 | 62 | intergenic (+474/+168) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 4,296,190 | 0 | A | G | 26.9% | 84.7 / 30.6 | 52 | intergenic (+396/+246) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 3,669,715 | 0 | G | T | 26.4% | 230.4 / 15.2 | 129 | E42* (GAG→TAG) | treF | cytoplasmic trehalase |
| * | NC_000913 | 1,812,509 | 0 | G | T | 26.3% | 268.7 / 19.5 | 133 | L208L (CTC→CTA) | ydjO | protein YdjO |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 781222 | 50 (0.490) | 9 (0.120) | 7/446 | 5.8 | 19.5% | noncoding (76/76 nt) | lysY | tRNA‑Lys |
| ? | NC_000913 | 781653 = | 37 (0.480) | intergenic (+1/‑432) | lysQ/nadA | tRNA‑Lys/quinolinate synthase | |||||
| * | ? | NC_000913 | = 696741 | 63 (0.610) | 7 (0.090) | 7/442 | 5.8 | 12.9% | intergenic (‑1/+15) | metU/glnW | tRNA‑Met/tRNA‑Gln |
| ? | NC_000913 | 697135 = | 48 (0.630) | intergenic (‑2/+378) | metT/asnB | tRNA‑Met/asparagine synthetase B | |||||
| * | ? | NC_000913 | = 1286906 | 55 (0.540) | 9 (0.090) | 8/558 | 6.6 | 14.8% | coding (198/276 nt) | ychS | putative uncharacterized protein YchS |
| ? | NC_000913 | 1287557 = | 52 (0.540) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | NC_000913 | = 696506 | 87 (0.850) | 3 (0.040) | 3/444 | 7.8 | 5.0% | intergenic (‑2/+36) | glnX/glnV | tRNA‑Gln/tRNA‑Gln |
| ? | NC_000913 | 696619 = | 50 (0.660) | intergenic (‑3/+45) | glnV/metU | tRNA‑Gln/tRNA‑Met | |||||
| * | ? | NC_000913 | = 1287084 | 46 (0.450) | 6 (0.060) | 4/558 | 8.4 | 11.2% | noncoding (153/171 nt) | rttR | small RNA RttR |
| ? | NC_000913 | 1287557 = | 52 (0.540) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||