mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 4,306,763 | 0 | A | C | 63.8% | 154.3 / 183.0 | 174 | intergenic (‑166/+107) | yjcS/alsK | metallo‑beta‑lactamase superfamily protein/D‑allose kinase |
| * | NC_000913 | 4,296,060 | 0 | C | T | 28.2% | 475.7 / 234.8 | 320 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 2,815,589 | 0 | T | G | 24.1% | 267.8 / 77.3 | 133 | K284T (AAG→ACG) | gshA | glutamate‑cysteine ligase |
| * | NC_000913 | 4,365,991 | 0 | T | G | 23.9% | 273.5 / 82.0 | 144 | A261A (GCA→GCC) | dcuA | C4‑dicarboxylate antiporter |
| * | NC_000913 | 4,600,721 | 0 | T | G | 23.1% | 399.4 / 103.3 | 186 | L85F (TTA→TTC) | dnaC | DNA biosynthesis protein |
| * | NC_000913 | 83,587 | 0 | A | C | 21.4% | 430.4 / 109.9 | 211 | intergenic (‑58/+35) | leuA/leuL | 2‑isopropylmalate synthase/leu operon leader peptide |
| * | NC_000913 | 83,590 | 0 | G | T | 20.8% | 432.5 / 109.1 | 211 | intergenic (‑61/+32) | leuA/leuL | 2‑isopropylmalate synthase/leu operon leader peptide |
| * | NC_000913 | 681,705 | 0 | C | T | 20.7% | 341.8 / 75.9 | 165 | intergenic (+42/+18) | djlC/hscC | J domain‑containing HscC co‑chaperone; Hsc56/Hsp70 family chaperone Hsc62; RpoD‑binding transcription inhibitor |
| * | NC_000913 | 603,395 | 0 | C | G | 20.4% | 358.7 / 93.5 | 159 | intergenic (+60/+21) | pheP/ybdG | phenylalanine transporter/mechanosensitive channel protein, miniconductance |
| * | NC_000913 | 443,023 | 0 | T | C | 20.1% | 326.7 / 73.4 | 159 | intergenic (+26/+28) | thiI/yajL | tRNA s(4)U8 sulfurtransferase/oxidative‑stress‑resistance chaperone |
| * | NC_000913 | 603,393 | 0 | T | A | 20.0% | 356.8 / 89.4 | 160 | intergenic (+58/+23) | pheP/ybdG | phenylalanine transporter/mechanosensitive channel protein, miniconductance |
| * | NC_000913 | 681,699 | 0 | T | A | 20.0% | 368.0 / 91.9 | 172 | intergenic (+36/+24) | djlC/hscC | J domain‑containing HscC co‑chaperone; Hsc56/Hsp70 family chaperone Hsc62; RpoD‑binding transcription inhibitor |
| Marginal new junction evidence (lowest skew 10 of 948 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1468681 | NA (NA) | 127 (1.460) +44 bp |
12/110 | 10.1 | NA | noncoding (560/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 1650843 = | NA (NA) | noncoding (1/706 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 4040640 = | 189 (1.200) | 47 (0.350) | 20/170 | 12.0 | 22.5% | intergenic (+4/+266) | rrfA/mobB | 5S ribosomal RNA of rrnA operon/molybdopterin‑guanine dinucleotide biosynthesis protein B |
| ? | NC_000913 | 4040684 = | NA (NA) | intergenic (+48/+222) | rrfA/mobB | 5S ribosomal RNA of rrnA operon/molybdopterin‑guanine dinucleotide biosynthesis protein B | |||||
| * | ? | NC_000913 | = 3944978 | NA (NA) | 66 (0.450) | 21/186 | 12.8 | 77.0% | noncoding (1275/2904 nt) | rrlC | 23S ribosomal RNA of rrnC operon |
| ? | NC_000913 | = 4038811 | 21 (0.130) | noncoding (1293/2905 nt) | rrlA | 23S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | 2727891 = | NA (NA) | 66 (0.450) | 21/186 | 12.8 | NA | noncoding (1294/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| ? | NC_000913 | 2727910 = | NA (NA) | noncoding (1275/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | = 227052 | 51 (0.330) | 66 (0.450) | 21/186 | 12.8 | 57.9% | noncoding (1294/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 2727910 = | NA (NA) | noncoding (1275/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | 2729630 = | NA (NA) | 61 (0.410) | 20/188 | 13.4 | NA | noncoding (1528/1542 nt) | rrsG | 16S ribosomal RNA of rrnG operon |
| ? | NC_000913 | 2729652 = | NA (NA) | noncoding (1506/1542 nt) | rrsG | 16S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | 3635910 = | 165 (1.050) | 23 (0.170) | 17/174 | 13.7 | 13.7% | intergenic (+17/+298) | yhiM/yhiN | acid resistance protein, inner membrane/putative oxidoreductase |
| ? | NC_000913 | 3635946 = | 144 (1.040) | intergenic (+53/+262) | yhiM/yhiN | acid resistance protein, inner membrane/putative oxidoreductase | |||||
| * | ? | NC_000913 | = 228108 | NA (NA) | 42 (0.280) | 19/190 | 14.1 | NA | noncoding (2350/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 228124 | NA (NA) | noncoding (2366/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | 2726200 = | NA (NA) | 79 (0.540) | 18/186 | 14.2 | NA | intergenic (‑12/+81) | rrfG/rrlG | 5S ribosomal RNA of rrnG operon/23S ribosomal RNA of rrnG operon |
| ? | NC_000913 | 2726224 = | NA (NA) | intergenic (‑36/+57) | rrfG/rrlG | 5S ribosomal RNA of rrnG operon/23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | 2560906 = | 151 (0.960) | 19 (0.170) +27 bp |
11/144 | 14.3 | 16.4% | intergenic (+8/‑462) | yffL/yffM | CPZ‑55 prophage; uncharacterized protein/CPZ‑55 prophage; uncharacterized protein |
| ? | NC_000913 | 2560978 = | 115 (0.730) | intergenic (+80/‑390) | yffL/yffM | CPZ‑55 prophage; uncharacterized protein/CPZ‑55 prophage; uncharacterized protein | |||||