mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.27.1 revision 87c22d663cc3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 43 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 4,186,425 | 0 | C | T | 53.2% | 128.8 / inf | 519 | P359L (CCA→CTA) | rpoC | RNA polymerase, beta prime subunit |
| * | NC_000913 | 1,907,327 | 0 | G | A | 52.4% | 73.9 / inf | 430 | Q37* (CAG→TAG) | cspC | stress protein, member of the CspA‑family |
| * | NC_000913 | 3,368,214 | 0 | C | T | 49.0% | 39.7 / inf | 561 | Q130* (CAG→TAG) | yhcG | DUF1016 family protein in the PD‑(D/E)XK nuclease superfamily |
| * | NC_000913 | 2,428,520 | 0 | A | G | 48.2% | 45.6 / inf | 450 | M36T (ATG→ACG) | ubiX | 3‑octaprenyl‑4‑hydroxybenzoate carboxy‑lyase |
| * | NC_000913 | 2,414,461 | 0 | C | T | 46.4% | 130.1 / inf | 492 | T331I (ACT→ATT) | ackA | acetate kinase A and propionate kinase 2 |
| * | NC_000913 | 4,188,572 | 0 | C | A | 44.3% | 420.9 / inf | 569 | R1075S (CGT→AGT) | rpoC | RNA polymerase, beta prime subunit |
| * | NC_000913 | 2,947,591 | 0 | A | . | 38.0% | 213.7 / 136.6 | 92 | intergenic (+18/‑16) | metW/metV | tRNA‑Met/tRNA‑Met |
| * | NC_000913 | 2,947,467 | 0 | A | C | 29.7% | 261.7 / 138.3 | 139 | intergenic (+4/‑30) | metZ/metW | tRNA‑Met/tRNA‑Met |
| * | NC_000913 | 2,947,481 | 1 | . | A | 29.2% | 193.8 / 140.0 | 89 | intergenic (+18/‑16) | metZ/metW | tRNA‑Met/tRNA‑Met |
| * | NC_000913 | 1,708,805 | 0 | T | A | 27.6% | 102.6 / 39.0 | 159 | R629R (CGT→CGA) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913 | 422,429 | 0 | T | G | 27.5% | 750.6 / 104.7 | 420 | intergenic (+70/‑89) | proY/malZ | proline‑specific permease/maltodextrin glucosidase |
| * | NC_000913 | 1,708,901 | 0 | A | C | 27.1% | 298.7 / 64.6 | 279 | R661R (CGA→CGC) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913 | 3,269,994 | 0 | G | T | 27.0% | 251.4 / 23.1 | 194 | intergenic (+392/+631) | yhaC/garK | pentapetide repeats‑related protein/glycerate kinase I |
| * | NC_000913 | 3,270,151 | 0 | A | C | 26.9% | 229.8 / 50.1 | 256 | intergenic (+549/+474) | yhaC/garK | pentapetide repeats‑related protein/glycerate kinase I |
| * | NC_000913 | 4,296,060 | 0 | C | T | 26.3% | 960.3 / inf | 726 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 1,708,930 | 0 | C | A | 25.7% | 481.4 / 55.0 | 277 | P671Q (CCG→CAG) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913 | 915,213 | 0 | A | C | 25.7% | 247.9 / 31.1 | 198 | intergenic (‑356/+139) | ybjE/aqpZ | putative transporter/aquaporin Z |
| * | NC_000913 | 2,818,145 | 0 | T | C | 25.2% | 365.3 / 144.8 | 246 | intergenic (‑10/+53) | argZ/argY | tRNA‑Arg/tRNA‑Arg |
| * | NC_000913 | 3,270,167 | 0 | C | G | 24.8% | 398.0 / 59.7 | 302 | intergenic (+565/+458) | yhaC/garK | pentapetide repeats‑related protein/glycerate kinase I |
| * | NC_000913 | 4,392,457 | 0 | G | C | 24.3% | 375.3 / 46.2 | 296 | intergenic (+22/‑15) | glyV/glyX | tRNA‑Gly/tRNA‑Gly |
| Marginal new junction evidence (lowest skew 10 of 53 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1907451 | 238 (0.480) | 362 (0.740) | 153/300 | 3.6 | 60.3% | coding (141/144 nt) | yobF | DUF2527 family heat‑induced protein |
| ? | NC_000913 | 2101749 = | NA (NA) | noncoding (1195/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 1770322 | 289 (0.590) | 214 (0.440) | 138/300 | 5.1 | 42.5% | intergenic (+136/‑293) | ydiK/ydiL | UPF0118 family inner membrane protein/putative HTH domain DNA‑binding protein |
| ? | NC_000913 | = 2290113 | NA (NA) | noncoding (1/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 1770319 = | 296 (0.600) | 333 (0.680) | 127/300 | 6.5 | 52.9% | intergenic (+133/‑296) | ydiK/ydiL | UPF0118 family inner membrane protein/putative HTH domain DNA‑binding protein |
| ? | NC_000913 | 2101749 = | NA (NA) | noncoding (1195/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 3815858 | 287 (0.580) | 161 (0.350) | 116/280 | 6.7 | 38.9% | pseudogene (24/48 nt) | rph | ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH |
| ? | NC_000913 | 3815941 = | 238 (0.520) | pseudogene (609/669 nt) | rph | ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH | |||||
| * | ? | NC_000913 | 696863 = | 171 (0.350) | 120 (0.270) +GAAGAAACAATC |
57/276 | 18.3 | 28.2% | intergenic (‑33/+2) | glnW/glnU | tRNA‑Gln/tRNA‑Gln |
| ? | NC_000913 | = 697134 | 493 (1.000) | intergenic (‑1/+379) | metT/asnB | tRNA‑Met/asparagine synthetase B | |||||
| * | ? | NC_000913 | = 1770322 | 289 (0.590) | 202 (0.410) | 54/300 | 21.0 | 41.1% | intergenic (+136/‑293) | ydiK/ydiL | UPF0118 family inner membrane protein/putative HTH domain DNA‑binding protein |
| ? | NC_000913 | = 2067353 | NA (NA) | noncoding (1/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 780554 = | 541 (1.100) | 114 (0.240) +GAAG |
51/292 | 21.3 | 24.3% | noncoding (1/76 nt) | lysT | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 189 (0.380) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | 781577 = | 330 (0.670) | 216 (0.450) +GAAG |
50/292 | 21.6 | 46.1% | noncoding (1/76 nt) | lysQ | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 189 (0.380) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | 781369 = | 317 (0.650) | 143 (0.300) +GAAG |
50/292 | 21.6 | 36.7% | noncoding (1/76 nt) | lysZ | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 189 (0.380) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | = 1287084 | 184 (0.370) | 72 (0.170) | 31/260 | 26.1 | 21.2% | intergenic (+558/+3) | narI/tpr | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/protamine‑like protein |
| ? | NC_000913 | 1287557 = | 376 (0.880) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||