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 | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 4,296,060 | 0 | C | T | 25.0% | 91.6 / 27.8 | 52 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 1,107,711 | 0 | A | T | 22.2% | 49.6 / 10.5 | 27 | T453S (ACC→TCC) | clsC | stationary phase cardiolipin synthase 3 |
| * | NC_000913 | 1,107,716 | 0 | T | A | 22.2% | 50.5 / 11.2 | 27 | S454R (AGT→AGA) | clsC | stationary phase cardiolipin synthase 3 |
| * | NC_000913 | 1,107,717 | 0 | T | A | 22.2% | 51.9 / 11.5 | 27 | F455I (TTC→ATC) ‡ | clsC | stationary phase cardiolipin synthase 3 |
| * | NC_000913 | 1,107,718 | 0 | T | A | 22.2% | 52.5 / 10.4 | 27 | F455Y (TTC→TAC) ‡ | clsC | stationary phase cardiolipin synthase 3 |
| * | NC_000913 | 752,065 | 0 | G | C | 21.2% | 73.4 / 12.9 | 34 | D35E (GAC→GAG) | ybgQ | putative outer membrane protein |
| * | NC_000913 | 59,627 | 0 | C | T | 20.0% | 81.6 / 14.9 | 41 | intergenic (+348/+60) | yabP/rluA | pseudogene, pentapeptide repeats‑containing/dual specificity 23S rRNA pseudouridine(746), tRNA pseudouridine(32) synthase, SAM‑dependent |
| Marginal new junction evidence (lowest skew 10 of 59 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 3423823 = | NA (NA) | 12 (0.320) | 9/256 | 3.1 | 19.5% | intergenic (‑36/+57) | rrfD/rrlD | 5S ribosomal RNA of rrnD operon/23S ribosomal RNA of rrnD operon |
| ? | NC_000913 | = 3946688 | 52 (1.310) | intergenic (+81/‑12) | rrlC/rrfC | 23S ribosomal RNA of rrnC operon/5S ribosomal RNA of rrnC operon | |||||
| * | ? | NC_000913 | 2726200 = | NA (NA) | 12 (0.320) | 9/256 | 3.1 | 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 | = 228744 | 38 (0.960) | 12 (0.320) | 9/256 | 3.1 | 24.9% | intergenic (+82/‑12) | rrlH/rrfH | 23S ribosomal RNA of rrnH operon/5S ribosomal RNA of rrnH 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 | = 1207805 | 10 (0.250) | 8 (0.230) | 7/236 | 3.5 | 25.5% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 38 (1.090) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 4171761 | 46 (1.160) | 9 (0.230) +TAG |
7/262 | 3.8 | 17.3% | intergenic (+5/‑296) | rrfB/murB | 5S ribosomal RNA of rrnB operon/UDP‑N‑acetylenolpyruvoylglucosamine reductase, FAD‑binding |
| ? | NC_000913 | = 4213198 | 42 (1.060) | intergenic (+39/‑36) | rrfE/yjaA | 5S ribosomal RNA of rrnE operon/stress‑induced protein | |||||
| * | ? | NC_000913 | 3201050 = | 70 (1.770) | 7 (0.180) | 7/264 | 3.9 | 9.5% | intergenic (‑85/‑157) | ygiF/ygiM | inorganic triphosphatase/SH3 domain protein |
| ? | NC_000913 | 3201082 = | 64 (1.640) | intergenic (‑117/‑125) | ygiF/ygiM | inorganic triphosphatase/SH3 domain protein | |||||
| * | ? | NC_000913 | 1411899 = | 35 (0.880) | 5 (0.160) | 4/216 | 4.3 | 14.4% | coding (50/936 nt) | ttcA | tRNA s(2)C32 thioltransferase, iron sulfur cluster protein |
| ? | NC_000913 | = 1434958 | 31 (0.970) | pseudogene (51/51 nt) | ttcC | pseudogene, prophage Rac integration site ttcA duplication;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 4268317 = | NA (NA) | 5 (0.140) | 5/250 | 4.4 | NA | noncoding (1/24 nt) | REP319 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP319 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | 4268341 = | NA (NA) | intergenic (+34/+468) | tyrB/yjbS | tyrosine aminotransferase, tyrosine‑repressible, PLP‑dependent/uncharacterized protein | |||||
| * | ? | NC_000913 | = 3946826 | 11 (0.280) | 7 (0.180) +G |
5/266 | 4.7 | 21.0% | intergenic (+7/‑46) | rrfC/aspT | 5S ribosomal RNA of rrnC operon/tRNA‑Asp |
| ? | NC_000913 | = 4213198 | 42 (1.060) | intergenic (+39/‑36) | rrfE/yjaA | 5S ribosomal RNA of rrnE operon/stress‑induced protein | |||||
| * | ? | NC_000913 | 2726062 = | NA (NA) | 7 (0.180) +G |
5/266 | 4.7 | 14.4% | intergenic (‑316/+7) | kgtP/rrfG | alpha‑ketoglutarate transporter/5S ribosomal RNA of rrnG operon |
| ? | NC_000913 | = 4213198 | 42 (1.060) | intergenic (+39/‑36) | rrfE/yjaA | 5S ribosomal RNA of rrnE operon/stress‑induced protein | |||||