mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.32.1 revision aa8f2595a244
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 25 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,857,147 | 0 | A | . | 57.9% | ‑5.5 / 114.6 | 57 | coding (55/2562 nt) | mutS | methyl‑directed mismatch repair protein |
| * | NC_000913 | 2,857,148 | 0 | G | . | 57.9% | 10.2 / 106.0 | 57 | coding (56/2562 nt) | mutS | methyl‑directed mismatch repair protein |
| * | NC_000913 | 2,857,141 | 1 | . | G | 57.1% | 108.3 / 81.9 | 57 | coding (49/2562 nt) | mutS | methyl‑directed mismatch repair protein |
| * | NC_000913 | 2,857,144 | 0 | C | G | 54.7% | 46.6 / 79.1 | 57 | L18V (CTC→GTC) ‡ | mutS | methyl‑directed mismatch repair protein |
| * | NC_000913 | 1,286,965 | 0 | A | G | 53.1% | 8.6 / 222.8 | 177 | intergenic (+439/+101) | narI/rttR | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/rtT sRNA, processed from tyrT transcript |
| * | NC_000913 | 4,171,557 | 0 | C | A | 52.9% | 7.2 / 63.5 | 34 | intergenic (+13/‑80) | rrlB/rrfB | 23S ribosomal RNA of rrnB operon/5S ribosomal RNA of rrnB operon |
| * | NC_000913 | 2,857,143 | 1 | . | A | 50.9% | 98.2 / 94.4 | 57 | coding (51/2562 nt) | mutS | methyl‑directed mismatch repair protein |
| * | NC_000913 | 566,245 | 0 | G | A | 48.1% | 30.1 / 166.1 | 130 | pseudogene (132/279 nt) | exoD | pseudogene, DLP12 prophage, phage‑type exonuclease family,Phage or Prophage Related |
| * | NC_000913 | 566,173 | 0 | C | G | 43.8% | 61.3 / 219.1 | 128 | pseudogene (204/279 nt) | exoD | pseudogene, DLP12 prophage, phage‑type exonuclease family,Phage or Prophage Related |
| * | NC_000913 | 566,205 | 0 | T | C | 43.4% | 37.2 / 160.4 | 129 | pseudogene (172/279 nt) | exoD | pseudogene, DLP12 prophage, phage‑type exonuclease family,Phage or Prophage Related |
| * | NC_000913 | 2,857,142 | 0 | A | G | 42.1% | 19.7 / 64.6 | 57 | Y17C (TAT→TGT) | mutS | methyl‑directed mismatch repair protein |
| * | NC_000913 | 2,857,143 | 0 | T | A | 42.1% | 38.5 / 77.5 | 57 | Y17* (TAT→TAA) | mutS | methyl‑directed mismatch repair protein |
| * | NC_000913 | 2,857,145 | 0 | T | A | 42.1% | 38.2 / 78.1 | 57 | L18H (CTC→CAC) ‡ | mutS | methyl‑directed mismatch repair protein |
| * | NC_000913 | 2,857,146 | 0 | C | G | 42.1% | 47.0 / 84.8 | 57 | L18L (CTC→CTG) ‡ | mutS | methyl‑directed mismatch repair protein |
| * | NC_000913 | 566,277 | 0 | C | T | 38.1% | 123.7 / 130.0 | 135 | pseudogene (100/279 nt) | exoD | pseudogene, DLP12 prophage, phage‑type exonuclease family,Phage or Prophage Related |
| * | NC_000913 | 566,323 | 0 | C | T | 33.1% | 153.8 / 99.6 | 124 | pseudogene (54/279 nt) | exoD | pseudogene, DLP12 prophage, phage‑type exonuclease family,Phage or Prophage Related |
| * | NC_000913 | 566,326 | 0 | T | C | 32.8% | 124.4 / 111.9 | 125 | pseudogene (51/279 nt) | exoD | pseudogene, DLP12 prophage, phage‑type exonuclease family,Phage or Prophage Related |
| * | NC_000913 | 4,518,992 | 0 | C | . | 32.4% | 325.4 / 150.0 | 136 | pseudogene (272/504 nt) | insB1 | IS1 transposase B,IS, phage, Tn, Transposon‑related functions, extrachromosomal, transposon related |
| * | NC_000913 | 566,332 | 0 | T | G | 31.3% | 172.8 / 168.7 | 131 | pseudogene (45/279 nt) | exoD | pseudogene, DLP12 prophage, phage‑type exonuclease family,Phage or Prophage Related |
| * | NC_000913 | 4,296,060 | 0 | C | T | 29.4% | 106.2 / 45.4 | 68 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1178460 | 92 (1.220) | 4 (0.050) | 4/202 | 7.2 | 4.3% | coding (1141/1245 nt) | lolE | lipoprotein‑releasing system transmembrane protein |
| ? | NC_000913 | 1178464 = | 87 (1.190) | coding (1145/1245 nt) | lolE | lipoprotein‑releasing system transmembrane protein | |||||
| * | ? | NC_000913 | 4539142 = | 87 (1.150) | 4 (0.060) | 3/200 | 7.7 | 4.7% | coding (360/717 nt) | nanC | N‑acetylnuraminic acid outer membrane channel protein |
| ? | NC_000913 | 4539159 = | 78 (1.070) | coding (343/717 nt) | nanC | N‑acetylnuraminic acid outer membrane channel protein | |||||
| * | ? | NC_000913 | = 4492675 | 80 (1.060) | 3 (0.040) | 3/206 | 7.8 | 3.5% | coding (677/765 nt) | idnO | 5‑keto‑D‑gluconate‑5‑reductase |
| ? | NC_000913 | 4492681 = | 88 (1.180) | coding (671/765 nt) | idnO | 5‑keto‑D‑gluconate‑5‑reductase | |||||
| * | ? | NC_000913 | = 1498088 | 44 (0.580) | 3 (0.040) | 3/204 | 7.8 | 6.7% | coding (1233/1656 nt) | opgD | OPG biosynthetic periplasmic protein |
| ? | NC_000913 | 1498093 = | 41 (0.550) | coding (1238/1656 nt) | opgD | OPG biosynthetic periplasmic protein | |||||
| * | ? | NC_000913 | = 528037 | 114 (1.510) | 3 (0.040) | 3/204 | 7.8 | 2.6% | pseudogene (86/708 nt) | rhsH | pseudogene, Rhs family C‑terminal fragment with unique putative toxin domain |
| ? | NC_000913 | 528041 = | 114 (1.540) | pseudogene (90/708 nt) | rhsH | pseudogene, Rhs family C‑terminal fragment with unique putative toxin domain | |||||
| * | ? | NC_000913 | = 432398 | 94 (1.240) | 3 (0.040) | 3/206 | 7.8 | 3.1% | coding (454/540 nt) | yajI | putative lipoprotein |
| ? | NC_000913 | 432402 = | 93 (1.240) | coding (450/540 nt) | yajI | putative lipoprotein | |||||
| * | ? | NC_000913 | = 3280960 | 67 (0.890) | 3 (0.040) | 3/208 | 7.9 | 4.3% | pseudogene (260/375 nt) | agaW | pseudogene, N‑acetylgalactosamine‑specific enzyme IIC component of PTS,enzyme, Central intermediary metabolism: Amino sugars, PTS system N‑acetylgalactosameine‑specific IIC component 2 |
| ? | NC_000913 | 3280965 = | 67 (0.890) | pseudogene (265/375 nt) | agaW | pseudogene, N‑acetylgalactosamine‑specific enzyme IIC component of PTS,enzyme, Central intermediary metabolism: Amino sugars, PTS system N‑acetylgalactosameine‑specific IIC component 2 | |||||