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 77 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 1,529,218 | 0 | C | T | 71.6% | 114.5 / 55.6 | 74 | intergenic (+2066/‑704) | yncH/ydcD | DUF5445 domain‑containing protein YncH/uncharacterized protein YdcD |
| * | NC_000913 | 2,726,651 | 0 | T | G | 55.6% | ‑6.4 / 44.3 | 36 | noncoding (2534/2904 nt) | rrlG | 23S ribosomal RNA |
| * | NC_000913 | 2,726,984 | 0 | C | A | 54.5% | ‑6.1 / 11.3 | 11 | noncoding (2201/2904 nt) | rrlG | 23S ribosomal RNA |
| * | NC_000913 | 2,726,999 | 0 | C | G | 54.5% | ‑6.1 / 13.8 | 11 | noncoding (2186/2904 nt) | rrlG | 23S ribosomal RNA |
| * | NC_000913 | 2,727,046 | 0 | A | C | 45.5% | ‑6.2 / 10.3 | 12 | noncoding (2139/2904 nt) | rrlG | 23S ribosomal RNA |
| * | NC_000913 | 2,726,652 | 0 | A | G | 44.4% | ‑4.9 / 44.9 | 36 | noncoding (2533/2904 nt) | rrlG | 23S ribosomal RNA |
| * | NC_000913 | 107,546 | 0 | T | G | 41.7% | 22.3 / 12.1 | 24 | intergenic (+72/‑159) | lpxC/secM | UDP‑3‑O‑acyl‑N‑acetylglucosamine deacetylase/SecA translation regulator |
| * | NC_000913 | 2,727,023 | 0 | C | T | 41.7% | ‑5.7 / 10.1 | 12 | noncoding (2162/2904 nt) | rrlG | 23S ribosomal RNA |
| * | NC_000913 | 224,771 | 0 | C | G | 38.1% | 1041.7 / inf | 603 | noncoding (1001/1542 nt) | rrsH | 16S ribosomal RNA |
| * | NC_000913 | 4,038,849 | 0 | G | A | 37.9% | 43.6 / 28.3 | 29 | noncoding (1331/2905 nt) | rrlA | 23S ribosomal RNA |
| * | NC_000913 | 4,038,850 | 0 | G | C | 37.9% | 46.6 / 34.1 | 29 | noncoding (1332/2905 nt) | rrlA | 23S ribosomal RNA |
| * | NC_000913 | 526,792 | 0 | A | C | 35.4% | 182.4 / 178.3 | 166 | S1178R (AGC→CGC) | rhsD | protein RhsD |
| * | NC_000913 | 4,038,836 | 0 | C | G | 34.7% | 116.9 / 81.4 | 72 | noncoding (1318/2905 nt) | rrlA | 23S ribosomal RNA |
| * | NC_000913 | 1,529,203 | 0 | C | A | 34.5% | 31.7 / 27.3 | 29 | intergenic (+2051/‑719) | yncH/ydcD | DUF5445 domain‑containing protein YncH/uncharacterized protein YdcD |
| * | NC_000913 | 226,310 | 0 | T | G | 34.4% | 537.8 / inf | 317 | noncoding (552/2904 nt) | rrlH | 23S ribosomal RNA |
| * | NC_000913 | 526,796 | 0 | C | G | 34.2% | 226.7 / 183.6 | 163 | A1179G (GCG→GGG) | rhsD | protein RhsD |
| * | NC_000913 | 226,309 | 0 | G | A | 34.1% | 538.6 / inf | 320 | noncoding (551/2904 nt) | rrlH | 23S ribosomal RNA |
| * | NC_000913 | 226,308 | 0 | C | T | 33.9% | 545.6 / inf | 322 | noncoding (550/2904 nt) | rrlH | 23S ribosomal RNA |
| * | NC_000913 | 226,248 | 0 | C | A | 33.5% | 282.3 / 164.9 | 168 | noncoding (490/2904 nt) | rrlH | 23S ribosomal RNA |
| * | NC_000913 | 226,280 | 0 | A | G | 33.5% | 431.1 / 248.7 | 261 | noncoding (522/2904 nt) | rrlH | 23S ribosomal RNA |
| Marginal new junction evidence (lowest skew 10 of 65 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 223843 | 50 (0.480) | 18 (0.230) +35 bp |
9/210 | 2.2 | 18.4% | noncoding (73/1542 nt) | rrsH | 16S ribosomal RNA |
| ? | NC_000913 | = 3428664 | 163 (1.560) | noncoding (99/1542 nt) | rrsD | 16S ribosomal RNA | |||||
| * | ? | NC_000913 | 375124 = | 103 (0.990) | 13 (0.180) | 7/196 | 2.5 | 14.0% | intergenic (+243/‑335) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377530 = | 88 (1.210) | intergenic (+219/+5) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | 228930 = | 99 (0.950) | 10 (0.100) +GCGCTATACAT |
8/258 | 2.9 | 10.2% | noncoding (3/77 nt) | aspU | tRNA‑Asp |
| ? | NC_000913 | = 781147 | 92 (0.880) | noncoding (1/76 nt) | lysY | tRNA‑Lys | |||||
| * | ? | NC_000913 | 4373287 = | 85 (0.820) | 42 (0.430) | 7/260 | 3.2 | 20.6% | intergenic (+125/+78) | yjeI/yjeJ | DUF4156 domain‑containing lipoprotein YjeI/protein YjeJ |
| ? | NC_000913 | 4374507 = | 244 (2.520) | intergenic (‑273/+122) | yjeJ/epmB | protein YjeJ/lysine 2,3‑aminomutase | |||||
| * | ? | NC_000913 | 72135 = | 61 (0.590) | 17 (0.160) | 8/280 | 3.2 | 20.9% | intergenic (+20/+94) | yabI/thiQ | DedA family protein YabI/thiamine ABC transporter ATP binding subunit |
| ? | NC_000913 | = 4296059 | 68 (0.650) | intergenic (+265/+377) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO | |||||
| * | ? | NC_000913 | = 4168447 | NA (NA) | 9 (0.090) +AT |
7/276 | 3.4 | 6.7% | noncoding (76/76 nt) | gltT | tRNA‑Glu |
| ? | NC_000913 | 4392360 = | 127 (1.220) | noncoding (1/76 nt) | glyV | tRNA‑Gly | |||||
| * | ? | NC_000913 | = 375064 | 90 (0.860) | 8 (0.110) | 4/196 | 3.4 | 9.6% | intergenic (+183/‑395) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | = 377487 | 88 (1.210) | intergenic (+176/+48) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | 375023 = | 49 (0.470) | 7 (0.100) | 4/196 | 3.4 | 10.4% | intergenic (+142/‑436) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377530 = | 87 (1.200) | intergenic (+219/+5) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | 4373261 = | 83 (0.800) | 30 (0.350) | 5/230 | 3.5 | 17.1% | intergenic (+99/+104) | yjeI/yjeJ | DUF4156 domain‑containing lipoprotein YjeI/protein YjeJ |
| ? | NC_000913 | 4374533 = | 223 (2.610) | intergenic (‑299/+96) | yjeJ/epmB | protein YjeJ/lysine 2,3‑aminomutase | |||||
| * | ? | NC_000913 | 3662289 = | 185 (1.770) | 6 (0.060) | 6/260 | 3.5 | 4.1% | coding (1876/3114 nt) | mdtF | multidrug efflux pump RND permease MdtF |
| ? | NC_000913 | = 3848573 | 112 (1.160) | coding (52/1320 nt) | uhpC | inner membrane protein sensing glucose‑6‑phosphate | |||||