mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.29.0 revision 8f9c342918e4
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 | 650,835 | 0 | C | A | 76.2% | 115.5 / 43.5 | 63 | R341L (CGC→CTC) | citC | citrate lyase ligase; [citrate [pro‑3S]‑lyase] ligase |
| * | NC_000913 | 1,434,459 | 0 | C | T | 72.4% | 11.7 / 17.9 | 29 | intergenic (‑235/+499) | ynaE/ttcC | cold shock protein, Rac prophage/pseudogene, prophage Rac integration site ttcA duplication;Phage or Prophage Related |
| * | NC_000913 | 1,033,233 | 0 | A | T | 70.0% | 117.6 / 72.6 | 80 | P365P (CCA→CCT) | hyaA | hydrogenase 1, small subunit |
| * | NC_000913 | 3,287,303 | 0 | A | T | 65.8% | 131.8 / 125.5 | 114 | intergenic (+278/‑123) | agaI/yraH | galactosamine‑6‑phosphate isomerase/putative fimbrial‑like adhesin protein |
| * | NC_000913 | 2,610,369 | 0 | A | T | 35.4% | 85.6 / 87.3 | 79 | Q69L (CAG→CTG) | hyfH | hydrogenase 4, Fe‑S subunit |
| * | NC_000913 | 4,296,060 | 0 | C | T | 27.4% | 210.8 / 84.2 | 124 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 3,096,938 | 0 | G | T | 25.6% | 174.9 / 59.2 | 82 | A86A (GCG→GCT) | rdgB | dITP/XTP pyrophosphatase |
| * | NC_000913 | 491,743 | 0 | T | G | 24.7% | 140.4 / 62.9 | 81 | I111S (ATC→AGC) | apt | adenine phosphoribosyltransferase |
| * | NC_000913 | 3,705,985 | 0 | T | C | 23.2% | 239.8 / 67.3 | 113 | intergenic (‑195/+113) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,705,984 | 0 | T | G | 23.0% | 275.3 / 85.7 | 113 | intergenic (‑194/+114) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 1,071,699 | 0 | C | A | 22.8% | 177.5 / 48.3 | 79 | G23W (GGG→TGG) | rutD | putative reactive intermediate detoxifying aminoacrylate hydrolase |
| * | NC_000913 | 1,465,184 | 0 | G | A | 21.5% | 257.5 / 68.4 | 130 | P16L (CCA→CTA) | ynbG | uncharacterized protein |
| Marginal new junction evidence (lowest skew 10 of 808 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 83 (1.040) | 20 (0.300) | 20/166 | 4.1 | 26.1% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 44 (0.660) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 79 (0.990) | 13 (0.190) | 12/166 | 6.7 | 19.4% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 42 (0.630) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 3943635 | NA (NA) | 15 (0.200) | 12/184 | 7.5 | 51.8% | intergenic (+125/‑69) | gltU/rrlC | tRNA‑Glu/23S ribosomal RNA of rrnC operon |
| ? | NC_000913 | = 4037446 | 15 (0.190) | intergenic (+111/‑73) | alaT/rrlA | tRNA‑Ala/23S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | = 3944978 | NA (NA) | 22 (0.290) | 11/186 | 8.0 | 58.0% | noncoding (1275/2904 nt) | rrlC | 23S ribosomal RNA of rrnC operon |
| ? | NC_000913 | = 4038811 | 17 (0.210) | noncoding (1293/2905 nt) | rrlA | 23S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | 2727891 = | NA (NA) | 22 (0.290) | 11/186 | 8.0 | 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 | 32 (0.400) | 22 (0.290) | 11/186 | 8.0 | 42.3% | 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 | = 225685 | 97 (1.210) | 15 (0.200) | 11/186 | 8.0 | 14.1% | intergenic (+110/‑74) | alaV/rrlH | tRNA‑Ala/23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 3943636 | NA (NA) | intergenic (+126/‑68) | gltU/rrlC | tRNA‑Glu/23S ribosomal RNA of rrnC operon | |||||
| * | ? | NC_000913 | = 753140 | 105 (1.310) | 12 (0.160) | 10/182 | 8.3 | 11.0% | intergenic (‑345/+45) | ybgD/gltA | putative fimbrial‑like adhesin protein/citrate synthase |
| ? | NC_000913 | = 753148 | 98 (1.330) | intergenic (‑353/+37) | ybgD/gltA | putative fimbrial‑like adhesin protein/citrate synthase | |||||
| * | ? | NC_000913 | 2728214 = | NA (NA) | 11 (0.140) | 10/190 | 8.6 | NA | noncoding (971/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| ? | NC_000913 | 2728240 = | NA (NA) | noncoding (945/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | = 226707 | 0 (0.000) | 11 (0.140) | 10/190 | 8.6 | 100% | noncoding (949/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 226725 | NA (NA) | noncoding (967/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||