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 29 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 361,692 | 0 | G | T | 48.0% | 6867.7 / inf | 10145 | Q18K (CAG→AAG) | lacI | DNA‑binding transcriptional repressor |
| * | CP009273 | 360,969 | 0 | C | A | 47.9% | 8241.3 / inf | 11828 | E259* (GAG→TAG) | lacI | DNA‑binding transcriptional repressor |
| * | CP009273 | 1,317,430 | 0 | C | A | 45.6% | 2992.0 / inf | 3537 | intergenic (‑91/‑47) | trpL/yciV | trp operon leader peptide/PHP domain protein |
| * | CP009273 | 2,400,744 | 0 | C | A | 42.9% | 185.6 / 195.2 | 175 | intergenic (‑624/‑296) | lrhA/alaA | transcriptional repressor of flagellar, motility and chemotaxis genes/valine‑pyruvate aminotransferase 2 |
| * | CP009273 | 4,158,149 | 0 | T | C | 36.5% | 550.1 / inf | 416 | intergenic (+21/‑151) | rrsB/gltT | 16S ribosomal RNA of rrnB operon/tRNA‑Glu |
| * | CP009273 | 4,158,143 | 0 | A | T | 35.9% | 547.8 / inf | 407 | intergenic (+15/‑157) | rrsB/gltT | 16S ribosomal RNA of rrnB operon/tRNA‑Glu |
| * | CP009273 | 1,091,481 | 0 | T | A | 32.2% | 327.2 / 223.2 | 236 | D61E (GAT→GAA) | ycdU | putative inner membrane protein |
| * | CP009273 | 3,624,795 | 0 | A | T | 32.1% | 299.0 / 212.5 | 221 | Y386N (TAC→AAC) | yhiJ | DUF4049 family protein |
| * | CP009273 | 3,774,404 | 0 | T | A | 30.5% | 214.5 / 48.9 | 119 | intergenic (+27/‑171) | lldD/trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent |
| * | CP009273 | 357,022 | 0 | C | A | 30.4% | 311.3 / 32.7 | 161 | E184* (GAA→TAA) | lacA | thiogalactoside acetyltransferase |
| * | CP009273 | 36,976 | 0 | C | A | 30.1% | 556.4 / 197.2 | 269 | A283A (GCG→GCT) | caiC | putative crotonobetaine/carnitine‑CoA ligase |
| * | CP009273 | 3,774,518 | 0 | A | C | 26.8% | 144.9 / 48.1 | 112 | intergenic (+141/‑57) | lldD/trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent |
| * | CP009273 | 2,223,379 | 0 | A | T | 26.3% | 438.4 / 187.9 | 247 | A162A (GCT→GCA) | dusC | tRNA‑dihydrouridine synthase C |
| * | CP009273 | 3,498,226 | 0 | T | A | 26.3% | 357.9 / 41.9 | 181 | intergenic (+84/+68) | frlR/yhfS | putative DNA‑binding transcriptional regulator/FNR‑regulated pyridoxal phosphate‑dependent aminotransferase family protein |
| * | CP009273 | 2,381,497 | 0 | C | A | 25.8% | 487.1 / 125.8 | 209 | E137* (GAA→TAA) | yfbN | uncharacterized protein |
| * | CP009273 | 1,306,217 | 0 | A | C | 24.9% | 265.3 / 157.4 | 193 | V96G (GTG→GGG) | yciA | acyl‑CoA esterase |
| * | CP009273 | 3,774,406 | 0 | T | A | 24.4% | 264.3 / 21.6 | 119 | intergenic (+29/‑169) | lldD/trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent |
| * | CP009273 | 3,498,220 | 0 | T | A | 24.1% | 382.3 / 34.6 | 176 | intergenic (+78/+74) | frlR/yhfS | putative DNA‑binding transcriptional regulator/FNR‑regulated pyridoxal phosphate‑dependent aminotransferase family protein |
| * | CP009273 | 3,498,232 | 0 | T | A | 23.7% | 390.0 / 65.5 | 188 | intergenic (+90/+62) | frlR/yhfS | putative DNA‑binding transcriptional regulator/FNR‑regulated pyridoxal phosphate‑dependent aminotransferase family protein |
| * | CP009273 | 3,774,505 | 0 | C | G | 23.3% | 324.7 / 59.0 | 116 | intergenic (+128/‑70) | lldD/trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | = 1282540 | 158 (0.680) | 7 (0.030) | 3/258 | 31.9 | 3.8% | noncoding (153/171 nt) | rttR | rtT sRNA, processed from tyrT transcript |
| ? | CP009273 | 1283013 = | 215 (1.070) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | CP009273 | 634507 = | 213 (0.910) | 5 (0.020) | 3/280 | 33.5 | 2.4% | coding (107/564 nt) | ahpC | alkyl hydroperoxide reductase, C22 subunit |
| ? | CP009273 | = 634503 | 206 (0.940) | coding (103/564 nt) | ahpC | alkyl hydroperoxide reductase, C22 subunit | |||||
| * | ? | CP009273 | 361144 = | 11239 (48.270) | 4 (0.020) | 3/280 | 33.5 | 0.038% | coding (600/1083 nt) | lacI | DNA‑binding transcriptional repressor |
| ? | CP009273 | = 361139 | 10500 (48.010) | coding (605/1083 nt) | lacI | DNA‑binding transcriptional repressor | |||||
| * | ? | CP009273 | = 361823 | 193 (0.830) | 40 (0.180) +TTAATTAA |
3/282 | 33.6 | 17.8% | coding (831/834 nt) | mhpR | mhp operon transcriptional activator |
| ? | CP009273 | 4033991 = | 198 (0.850) | noncoding (115/120 nt) | rrfA | 5S ribosomal RNA of rrnA operon | |||||