mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 239 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | REL606 | 2,437,406 | 0 | G | T | 54.0% | 20.3 / 60.6 | 37 | D435E (GAC→GAA) | ypdD | fused predicted PTS enzymes: Hpr component/enzyme I component/enzyme IIA component |
| * | REL606 | 2,515,909 | 0 | A | C | 51.3% | 74.0 / 121.0 | 74 | V260G (GTG→GGG) | ypfI | predicted hydrolase |
| * | REL606 | 720,466 | 0 | G | C | 47.8% | 10.0 / 13.4 | 23 | A23P (GCC→CCC) | phrB | deoxyribodipyrimidine photolyase, FAD‑binding |
| * | REL606 | 4,180,249 | 0 | T | G | 46.7% | 118.4 / 32.7 | 90 | G24G (GGT→GGG) | yjaH | hypothetical protein |
| * | REL606 | 433 | 0 | T | G | 44.9% | 88.1 / 42.4 | 78 | V33G (GTG→GGG) | thrA | bifunctional aspartokinase I/homeserine dehydrogenase I |
| * | REL606 | 2,376,348 | 0 | T | G | 43.7% | 211.2 / 42.9 | 151 | T63P (ACC→CCC) | folC | bifunctional folylpolyglutamate synthase/ dihydrofolate synthase |
| * | REL606 | 1,854,401 | 0 | A | C | 43.5% | 115.2 / 43.7 | 92 | K88N (AAA→AAC) | yeaO | hypothetical protein |
| * | REL606 | 414,056 | 0 | T | G | 37.6% | 234.4 / 58.3 | 133 | T345P (ACC→CCC) | yajR | predicted transporter |
| * | REL606 | 2,103,887 | 1 | . | C | 37.5% | 7.1 / 33.5 | 16 | coding (154/216 nt) | ECB_01992 | hypothetical protein |
| * | REL606 | 2,103,887 | 2 | . | A | 37.5% | 9.1 / 27.8 | 16 | coding (154/216 nt) | ECB_01992 | hypothetical protein |
| * | REL606 | 2,103,887 | 3 | . | G | 37.5% | 13.4 / 26.9 | 16 | coding (154/216 nt) | ECB_01992 | hypothetical protein |
| * | REL606 | 2,103,887 | 4 | . | C | 37.5% | 7.5 / 33.1 | 16 | coding (154/216 nt) | ECB_01992 | hypothetical protein |
| * | REL606 | 2,044,357 | 0 | A | C | 36.8% | 371.9 / 76.8 | 185 | V284G (GTG→GGG) | rfbD | dTDP‑4‑dehydrorhamnose reductase subunit, NAD(P)‑binding, of dTDP‑L‑rhamnose synthase |
| * | REL606 | 4,392,556 | 0 | C | T | 36.4% | 161.8 / 84.0 | 132 | L43L (CTA→TTA) | aidB | isovaleryl CoA dehydrogenase |
| * | REL606 | 1,118,209 | 0 | G | T | 36.2% | 55.6 / 40.1 | 47 | intergenic (‑444/‑311) | csgD/csgB | DNA‑binding transcriptional activator in two‑component regulatory system/curlin nucleator protein, minor subunit in curli complex |
| * | REL606 | 1,485,450 | 0 | A | G | 36.0% | 351.9 / 134.0 | 200 | G193G (GGA→GGG) | ydcV | predicted spermidine/putrescine transporter subunit |
| * | REL606 | 720,464 | 0 | C | G | 35.7% | 31.5 / 21.2 | 28 | A22G (GCC→GGC) | phrB | deoxyribodipyrimidine photolyase, FAD‑binding |
| * | REL606 | 1,061,648 | 0 | A | C | 35.2% | 342.4 / 35.6 | 159 | G40G (GGT→GGG) | yccY | phosphotyrosine‑protein phosphatase |
| * | REL606 | 1,906,430 | 0 | A | C | 35.1% | 373.5 / 58.6 | 174 | V329G (GTG→GGG) | ptrB | protease II |
| * | REL606 | 1,853,067 | 0 | A | C | 34.7% | 260.6 / 98.7 | 147 | T56P (ACC→CCC) | yeaN | predicted transporter |
| Marginal new junction evidence (lowest skew 10 of 13 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | REL606 | = 2103887 | 3 (0.020) | 71 (0.350) +CAGC |
26/80 | 4.7 | 90.8% | coding (154/216 nt) | ECB_01992 | hypothetical protein |
| ? | REL606 | 2103888 = | 10 (0.050) | coding (155/216 nt) | ECB_01992 | hypothetical protein | |||||
| * | ? | REL606 | 2103888 = | 63 (0.290) | 50 (0.370) | 29/96 | 5.6 | 69.4% | coding (155/216 nt) | ECB_01992 | hypothetical protein |
| ? | REL606 | = 2103891 | 4 (0.030) | coding (158/216 nt) | ECB_01992 | hypothetical protein | |||||
| * | ? | REL606 | = 2036917 | 132 (0.610) | 6 (0.030) | 6/140 | 19.4 | 5.1% | coding (42/1113 nt) | wbbC | putative glycosyltransferase WbbC |
| ? | REL606 | = 2037192 | 99 (0.490) | coding (939/1176 nt) | wzy | O antigen polymerase (Wzy) | |||||
| * | ? | REL606 | = 2042596 | 126 (0.580) | 4 (0.020) | 4/136 | 20.6 | 3.0% | coding (225/1428 nt) | wzx | O antigen translocase (Wzx) |
| ? | REL606 | = 2042873 | 148 (0.760) | coding (494/546 nt) | rmlC | dTDP‑4‑dehydrorhamnose 3,5‑epimerase (RmlC) | |||||
| * | ? | REL606 | 2038236 = | 124 (0.580) | 5 (0.030) | 4/136 | 20.6 | 4.0% | coding (713/822 nt) | wbbB | putative glycosyltransferase WbbB |
| ? | REL606 | 2038515 = | 127 (0.650) | coding (434/822 nt) | wbbB | putative glycosyltransferase WbbB | |||||
| * | ? | REL606 | 1419093 = | 235 (1.090) | 6 (0.030) | 4/136 | 20.6 | 2.9% | coding (432/1458 nt) | trkG | potassium transporter subunit |
| ? | REL606 | 1419377 = | 188 (0.960) | coding (716/1458 nt) | trkG | potassium transporter subunit | |||||
| * | ? | REL606 | = 3737261 | 195 (0.900) | 4 (0.020) | 4/142 | 21.0 | 2.3% | coding (566/1254 nt) | waaL | Lipid A‑core, surface polymer ligase |
| ? | REL606 | = 3737695 | 161 (0.790) | coding (132/1254 nt) | waaL | Lipid A‑core, surface polymer ligase | |||||
| * | ? | REL606 | 358687 = | 189 (0.880) | 3 (0.020) | 3/134 | 21.3 | 1.4% | intergenic (‑52/+138) | hemB/ECB_00320 | delta‑aminolevulinic acid dehydratase/hypothetical protein |
| ? | REL606 | 359169 = | 260 (1.350) | coding (12/2907 nt) | yaiT | conserved hypothetical protein | |||||
| * | ? | REL606 | = 20119 | 186 (0.860) | 3 (0.020) | 3/134 | 21.3 | 2.1% | coding (499/960 nt) | ECB_00020 | hypothetical protein |
| ? | REL606 | = 20289 | 118 (0.610) | coding (329/960 nt) | ECB_00020 | hypothetical protein | |||||
| * | ? | REL606 | 3582468 = | 162 (0.750) | 3 (0.020) | 3/138 | 21.6 | 2.0% | coding (488/1224 nt) | yhiS | hypothetical protein |
| ? | REL606 | 3582955 = | 145 (0.730) | coding (975/1224 nt) | yhiS | hypothetical protein | |||||