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 42 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,428,520 | 0 | A | G | 53.7% | 118.1 / inf | 377 | M36T (ATG→ACG) | ubiX | 3‑octaprenyl‑4‑hydroxybenzoate carboxy‑lyase |
| * | NC_000913 | 4,186,425 | 0 | C | T | 51.8% | 57.9 / inf | 508 | P359L (CCA→CTA) | rpoC | RNA polymerase, beta prime subunit |
| * | NC_000913 | 2,414,461 | 0 | C | T | 45.6% | 152.2 / inf | 461 | T331I (ACT→ATT) | ackA | acetate kinase A and propionate kinase 2 |
| * | NC_000913 | 2,947,591 | 0 | A | . | 44.4% | 176.3 / 161.3 | 90 | intergenic (+18/‑16) | metW/metV | tRNA‑Met/tRNA‑Met |
| * | NC_000913 | 4,188,572 | 0 | C | A | 44.2% | 344.3 / inf | 487 | R1075S (CGT→AGT) | rpoC | RNA polymerase, beta prime subunit |
| * | NC_000913 | 3,368,214 | 0 | C | T | 42.6% | 292.9 / inf | 531 | Q130* (CAG→TAG) | yhcG | DUF1016 family protein in the PD‑(D/E)XK nuclease superfamily |
| * | NC_000913 | 1,708,901 | 0 | A | C | 31.6% | 255.8 / 75.7 | 241 | R661R (CGA→CGC) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913 | 422,429 | 0 | T | G | 30.9% | 691.9 / 122.2 | 413 | intergenic (+70/‑89) | proY/malZ | proline‑specific permease/maltodextrin glucosidase |
| * | NC_000913 | 4,392,457 | 0 | G | T | 28.2% | 356.8 / 29.4 | 259 | intergenic (+22/‑15) | glyV/glyX | tRNA‑Gly/tRNA‑Gly |
| * | NC_000913 | 1,552,191 | 0 | C | A | 28.1% | 819.1 / 107.6 | 437 | intergenic (+200/+207) | fdnI/yddM | formate dehydrogenase‑N, cytochrome B556 (gamma) subunit, nitrate‑inducible/putative DNA‑binding transcriptional regulator |
| * | NC_000913 | 1,708,758 | 0 | G | C | 28.0% | 127.0 / 37.7 | 129 | E614Q (GAA→CAA) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913 | 1,708,805 | 0 | T | A | 26.3% | 122.3 / 37.3 | 145 | R629R (CGT→CGA) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913 | 2,818,158 | 0 | T | A | 25.1% | 331.2 / 107.2 | 200 | intergenic (‑23/+40) | argZ/argY | tRNA‑Arg/tRNA‑Arg |
| * | NC_000913 | 1,708,880 | 0 | C | A | 24.8% | 330.7 / 35.6 | 202 | A654A (GCC→GCA) | 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 | 24.4% | 303.4 / 17.6 | 212 | intergenic (+392/+631) | yhaC/garK | pentapetide repeats‑related protein/glycerate kinase I |
| * | NC_000913 | 2,818,145 | 0 | T | C | 24.3% | 343.0 / 126.7 | 220 | intergenic (‑10/+53) | argZ/argY | tRNA‑Arg/tRNA‑Arg |
| * | NC_000913 | 422,432 | 0 | T | G | 24.3% | 868.6 / 71.6 | 413 | intergenic (+73/‑86) | proY/malZ | proline‑specific permease/maltodextrin glucosidase |
| * | NC_000913 | 3,270,167 | 0 | C | G | 24.0% | 358.6 / 44.8 | 262 | intergenic (+565/+458) | yhaC/garK | pentapetide repeats‑related protein/glycerate kinase I |
| * | NC_000913 | 4,296,060 | 0 | C | T | 24.0% | 882.5 / inf | 630 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 422,435 | 0 | T | G | 23.4% | 901.3 / 68.4 | 413 | intergenic (+76/‑83) | proY/malZ | proline‑specific permease/maltodextrin glucosidase |
| Marginal new junction evidence (lowest skew 10 of 41 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1770322 | 245 (0.530) | 327 (0.710) | 146/300 | 3.8 | 57.2% | 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 = | 248 (0.540) | 308 (0.670) | 136/300 | 4.9 | 55.4% | 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 | = 1907451 | 257 (0.560) | 262 (0.570) | 134/300 | 5.1 | 50.5% | coding (141/144 nt) | yobF | DUF2527 family heat‑induced protein |
| ? | NC_000913 | 2101749 = | NA (NA) | noncoding (1195/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 3815858 | 269 (0.580) | 161 (0.370) | 120/280 | 5.7 | 40.2% | pseudogene (24/48 nt) | rph | ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH |
| ? | NC_000913 | 3815941 = | 229 (0.530) | pseudogene (609/669 nt) | rph | ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH | |||||
| * | ? | NC_000913 | 1907448 = | 228 (0.510) | 254 (0.560) | 120/292 | 6.4 | 52.7% | coding (144/144 nt) | yobF | DUF2527 family heat‑induced protein |
| ? | NC_000913 | = 2290113 | NA (NA) | noncoding (1/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 1287084 | 142 (0.310) | 85 (0.210) | 52/260 | 18.0 | 29.7% | intergenic (+558/+3) | narI/tpr | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/protamine‑like protein |
| ? | NC_000913 | 1287557 = | 279 (0.700) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | NC_000913 | = 781446 | 258 (0.560) | 80 (0.200) | 47/260 | 19.6 | 21.9% | intergenic (+2/‑131) | lysZ/lysQ | tRNA‑Lys/tRNA‑Lys |
| ? | NC_000913 | 2521487 = | 347 (0.870) | intergenic (+159/+106) | lysV/xapR | tRNA‑Lys/transcriptional activator of xapAB | |||||
| * | ? | NC_000913 | 781577 = | 324 (0.700) | 216 (0.480) +GAAG |
53/292 | 20.1 | 47.0% | noncoding (1/76 nt) | lysQ | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 177 (0.380) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | 780554 = | 519 (1.120) | 117 (0.260) +GAAG |
52/292 | 20.4 | 25.7% | noncoding (1/76 nt) | lysT | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 177 (0.380) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | 781369 = | 267 (0.580) | 145 (0.320) +GAAG |
51/292 | 20.7 | 40.2% | noncoding (1/76 nt) | lysZ | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 177 (0.380) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||