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 | 1,434,459 | 0 | C | T | 79.2% | 22.4 / 7.0 | 24 | intergenic (‑235/+499) | ynaE/ttcC | cold shock protein, Rac prophage/pseudogene, prophage Rac integration site ttcA duplication;Phage or Prophage Related |
| * | NC_000913 | 1,719,282 | 0 | G | T | 30.4% | 214.2 / 103.4 | 116 | G107G (GGC→GGA) | anmK | anhydro‑N‑acetylmuramic acid kinase |
| * | NC_000913 | 632,661 | 0 | G | T | 27.9% | 132.3 / 55.9 | 69 | L273I (CTC→ATC) | ybdH | putative oxidoreductase |
| * | NC_000913 | 4,296,060 | 0 | C | T | 27.3% | 231.3 / 100.8 | 140 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 2,303,641 | 0 | A | T | 27.2% | 170.1 / 71.6 | 93 | intergenic (‑144/‑264) | napF/eco | ferredoxin‑type protein, role in electron transfer to periplasmic nitrate reductase NapA/ecotin, a serine protease inhibitor |
| * | NC_000913 | 3,499,268 | 0 | T | C | 25.0% | 235.6 / 88.2 | 132 | intergenic (+67/‑180) | cysG/yhfL | fused siroheme synthase 1,3‑dimethyluroporphyriongen III dehydrogenase and siroheme ferrochelatase/uroporphyrinogen methyltransferase/small lipoprotein |
| * | NC_000913 | 2,357,417 | 0 | C | T | 24.4% | 160.9 / 50.9 | 86 | R172C (CGT→TGT) | yfaD | transposase_31 family protein |
| * | NC_000913 | 3,705,984 | 0 | T | G | 20.3% | 357.4 / 89.4 | 133 | intergenic (‑194/+114) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,705,985 | 0 | T | C | 20.3% | 320.1 / 69.8 | 133 | intergenic (‑195/+113) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| Marginal new junction evidence (lowest skew 10 of 865 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 2727891 = | NA (NA) | 32 (0.370) | 21/186 | 5.6 | 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 | = 3944978 | NA (NA) | 32 (0.370) | 19/186 | 6.2 | 63.0% | noncoding (1275/2904 nt) | rrlC | 23S ribosomal RNA of rrnC operon |
| ? | NC_000913 | = 4038811 | 20 (0.220) | noncoding (1293/2905 nt) | rrlA | 23S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | = 227052 | 53 (0.570) | 32 (0.370) | 19/186 | 6.2 | 39.1% | 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 | 1207790 = | 91 (0.980) | 13 (0.170) | 13/166 | 7.4 | 13.9% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 85 (1.100) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 274419 | NA (NA) | 30 (0.340) | 14/188 | 8.1 | NA | noncoding (731/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 274423 | NA (NA) | noncoding (727/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 1207805 | 91 (0.980) | 12 (0.150) | 11/166 | 8.3 | 13.0% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 84 (1.080) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 225281 | NA (NA) | 15 (0.170) | 13/188 | 8.5 | NA | noncoding (1511/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 225293 | NA (NA) | noncoding (1523/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 315852 | NA (NA) | 16 (0.180) | 13/190 | 8.6 | NA | noncoding (624/1255 nt) | IS3 | repeat region |
| ? | NC_000913 | = 315875 | NA (NA) | noncoding (647/1255 nt) | IS3 | repeat region | |||||
| * | ? | NC_000913 | 2700550 = | 99 (1.070) | 8 (0.110) | 8/160 | 9.4 | 9.5% | intergenic (‑353/+68) | shoB/acpS | toxic membrane protein/holo‑[acyl‑carrier‑protein] synthase 1 |
| ? | NC_000913 | 2700601 = | 72 (0.960) | intergenic (‑404/+17) | shoB/acpS | toxic membrane protein/holo‑[acyl‑carrier‑protein] synthase 1 | |||||
| * | ? | NC_000913 | 225882 = | NA (NA) | 13 (0.150) | 11/188 | 9.4 | NA | noncoding (124/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 225899 = | NA (NA) | noncoding (141/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||