mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.17d
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence... | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | change | freq | score | reads | annotation | genes | product | ||
| * | NC_013198 | 1,845,241 | 0 | A→G | 100.0% | 3.5 | 1 | V226A (GTT→GCT) | LGG_01816 | hypothetical protein |
| * | NC_013198 | 24,833 | 0 | C→T | 100.0% | 2.2 | 1 | A183V (GCT→GTT) | is3 | transposase IS5 family protein |
| * | NC_013198 | 24,848 | 0 | T→. | 100.0% | 2.7 | 1 | coding (563/1419 nt) | is3 | transposase IS5 family protein |
| * | NC_013198 | 24,855 | 1 | .→T | 100.0% | 2.7 | 1 | coding (570/1419 nt) | is3 | transposase IS5 family protein |
| * | NC_013198 | 24,873 | 0 | T→. | 100.0% | 2.7 | 1 | coding (588/1419 nt) | is3 | transposase IS5 family protein |
| * | NC_013198 | 24,911 | 0 | C→. | 100.0% | 2.7 | 1 | coding (626/1419 nt) | is3 | transposase IS5 family protein |
| * | NC_013198 | 1,845,293 | 0 | C→T | 100.0% | 2.2 | 1 | A209T (GCC→ACC) | LGG_01816 | hypothetical protein |
| * | NC_013198 | 2,762,629 | 0 | T→G | 100.0% | 2.2 | 1 | T120P (ACA→CCA) | is66 | transposase IS3/IS911 family protein |
| * | NC_013198 | 2,762,645 | 0 | C→. | 100.0% | 2.9 | 1 | coding (342/537 nt) | is66 | transposase IS3/IS911 family protein |
| * | NC_013198 | 2,762,659 | 0 | A→C | 100.0% | 2.6 | 1 | L110V (TTG→GTG) | is66 | transposase IS3/IS911 family protein |
| * | NC_013198 | 24,828 | 0 | C→A | 100.0% | 1.8 | 1 | D181E (GAC→GAA) | is3 | transposase IS5 family protein |
| * | NC_013198 | 24,834 | 0 | T→C | 100.0% | 1.1 | 1 | A183A (GCT→GCC) | is3 | transposase IS5 family protein |
| * | NC_013198 | 24,842 | 0 | T→G | 100.0% | 1.5 | 1 | L186W (TTG→TGG) | is3 | transposase IS5 family protein |
| * | NC_013198 | 24,867 | 0 | C→A | 100.0% | 1.5 | 1 | Y194* (TAC→TAA) | is3 | transposase IS5 family protein |
| * | NC_013198 | 24,877 | 0 | G→A | 100.0% | 1.1 | 1 | A198T (GCA→ACA) | is3 | transposase IS5 family protein |
| * | NC_013198 | 24,879 | 0 | A→C | 100.0% | 1.6 | 1 | A198A (GCA→GCC) | is3 | transposase IS5 family protein |
| * | NC_013198 | 24,889 | 0 | T→G | 100.0% | 1.0 | 1 | W202G (TGG→GGG) | is3 | transposase IS5 family protein |
| * | NC_013198 | 24,891 | 0 | G→A | 100.0% | 1.4 | 1 | W202* (TGG→TGA) | is3 | transposase IS5 family protein |
| * | NC_013198 | 24,919 | 1 | .→C | 100.0% | 1.6 | 1 | coding (634/1419 nt) | is3 | transposase IS5 family protein |
| * | NC_013198 | 24,926 | 0 | A→G | 100.0% | 1.0 | 1 | K214R (AAG→AGG) | is3 | transposase IS5 family protein |
| * | NC_013198 | 24,934 | 0 | C→G | 100.0% | 1.0 | 1 | R217G (CGC→GGC) | is3 | transposase IS5 family protein |
| * | NC_013198 | 1,845,308 | 0 | C→T | 100.0% | 1.1 | 1 | A204T (GCC→ACC) | LGG_01816 | hypothetical protein |
| * | NC_013198 | 1,845,458 | 0 | G→T | 100.0% | 1.1 | 1 | Q154K (CAG→AAG) | LGG_01816 | hypothetical protein |
| * | NC_013198 | 2,762,642 | 0 | T→C | 100.0% | 1.1 | 1 | R115R (CGA→CGG) | is66 | transposase IS3/IS911 family protein |
| * | NC_013198 | 2,762,653 | 0 | G→C | 100.0% | 1.1 | 1 | P112A (CCG→GCG) | is66 | transposase IS3/IS911 family protein |
| * | NC_013198 | 24,838 | 0 | C→A | 100.0% | 0.7 | 1 | Q185K (CAG→AAG) | is3 | transposase IS5 family protein |
| * | NC_013198 | 24,865 | 0 | T→A | 100.0% | 0.7 | 1 | Y194N (TAC→AAC) | is3 | transposase IS5 family protein |
| * | NC_013198 | 24,884 | 1 | .→C | 100.0% | 0.8 | 1 | coding (599/1419 nt) | is3 | transposase IS5 family protein |
| * | NC_013198 | 24,902 | 0 | C→T | 100.0% | 0.9 | 1 | A206V (GCT→GTT) | is3 | transposase IS5 family protein |
| * | NC_013198 | 24,903 | 0 | T→A | 100.0% | 0.7 | 1 | A206A (GCT→GCA) | is3 | transposase IS5 family protein |
| * | NC_013198 | 24,917 | 0 | G→C | 100.0% | 0.6 | 1 | R211P (CGT→CCT) | is3 | transposase IS5 family protein |
| * | NC_013198 | 24,923 | 0 | C→A | 100.0% | 0.8 | 1 | A213D (GCT→GAT) | is3 | transposase IS5 family protein |
| * | NC_013198 | 1,845,236 | 0 | C→A | 100.0% | 0.8 | 1 | A228S (GCT→TCT) | LGG_01816 | hypothetical protein |
| * | NC_013198 | 1,845,245 | 0 | G→A | 100.0% | 0.6 | 1 | P225S (CCG→TCG) | LGG_01816 | hypothetical protein |
| * | NC_013198 | 1,845,262 | 0 | A→G | 100.0% | 0.5 | 1 | L219P (CTC→CCC) | LGG_01816 | hypothetical protein |
| * | NC_013198 | 1,845,264 | 0 | T→C | 100.0% | 0.5 | 1 | T218T (ACA→ACG) | LGG_01816 | hypothetical protein |
| * | NC_013198 | 1,845,265 | 0 | G→C | 100.0% | 0.5 | 1 | T218R (ACA→AGA) | LGG_01816 | hypothetical protein |
| * | NC_013198 | 1,845,266 | 0 | T→G | 100.0% | 0.5 | 1 | T218P (ACA→CCA) | LGG_01816 | hypothetical protein |
| * | NC_013198 | 1,845,269 | 0 | G→T | 100.0% | 0.8 | 1 | L217I (CTT→ATT) | LGG_01816 | hypothetical protein |
| * | NC_013198 | 1,845,282 | 0 | T→C | 100.0% | 0.4 | 1 | S212S (TCA→TCG) | LGG_01816 | hypothetical protein |
| * | NC_013198 | 1,845,314 | 0 | T→G | 100.0% | 0.9 | 1 | T202P (ACC→CCC) | LGG_01816 | hypothetical protein |
| * | NC_013198 | 1,845,323 | 0 | G→C | 100.0% | 0.6 | 1 | R199G (CGT→GGT) | LGG_01816 | hypothetical protein |
| * | NC_013198 | 1,845,339 | 0 | G→C | 100.0% | 0.4 | 1 | R193R (CGC→CGG) | LGG_01816 | hypothetical protein |
| * | NC_013198 | 1,845,407 | 0 | A→G | 100.0% | 0.9 | 1 | S171P (TCA→CCA) | LGG_01816 | hypothetical protein |
| * | NC_013198 | 1,845,453 | 0 | G→C | 100.0% | 0.6 | 1 | P155P (CCC→CCG) | LGG_01816 | hypothetical protein |
| * | NC_013198 | 1,845,478 | 0 | T→G | 100.0% | 0.4 | 1 | H147P (CAC→CCC) | LGG_01816 | hypothetical protein |
| * | NC_013198 | 2,762,623 | 0 | T→C | 100.0% | 0.9 | 1 | K122E (AAA→GAA) | is66 | transposase IS3/IS911 family protein |
| * | NC_013198 | 2,762,625 | 0 | A→T | 100.0% | 0.6 | 1 | V121E (GTG→GAG) | is66 | transposase IS3/IS911 family protein |
| * | NC_013198 | 2,762,651 | 1 | .→C | 100.0% | 0.4 | 1 | coding (336/537 nt) | is66 | transposase IS3/IS911 family protein |
| * | NC_013198 | 2,762,654 | 0 | A→C | 100.0% | 0.4 | 1 | R111R (CGT→CGG) | is66 | transposase IS3/IS911 family protein |
| Marginal new junction evidence... | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | annotation | gene | product | ||
| * | ? | NC_013198 | 1058951 = | 69 (0.816) | 26 (0.308) | 11/292 | 4.0 | coding (53/183 nt) | LGG_01046 | hypothetical protein |
| ? | NC_013198 | 1872897 = | 64 (0.737) | intergenic (‑27/+113) | LGG_01842/LGG_01843 | 5‑methylcytosine‑specific restriction enzyme MRR/hypothetical protein | ||||
| * | ? | NC_013198 | 1058951 = | 69 (0.805) | 23 (0.268) | 10/296 | 4.4 | coding (53/183 nt) | LGG_01046 | hypothetical protein |
| ? | NC_013198 | = 2898115 | 95 (1.094) | coding (225/237 nt) | LGG_02835 | hypothetical protein | ||||
| * | ? | NC_013198 | 656565 = | 1 (0.012) | 99 (1.171) | 7/292 | 5.3 | coding (486/1851 nt) | glpD | alpha‑glycerophosphate oxidase |
| ? | NC_013198 | = 656567 | 6 (0.069) | coding (484/1851 nt) | glpD | alpha‑glycerophosphate oxidase | ||||
| * | ? | NC_013198 | 807226 = | 81 (1.014) | 32 (0.401) | 6/276 | 5.5 | coding (19/153 nt) | LGG_00795 | hypothetical protein |
| ? | NC_013198 | = 807588 | 72 (0.829) | intergenic (+228/‑81) | LGG_00795/yfnB | hypothetical protein/haloacid dehalogenase‑like family hydrolase | ||||
| * | ? | NC_013198 | 876402 = | 0 (0.000) | 80 (0.946) | 6/292 | 5.7 | coding (551/636 nt) | cutC | copper homeostasis protein CutC |
| ? | NC_013198 | = 876404 | 0 (0.000) | coding (549/636 nt) | cutC | copper homeostasis protein CutC | ||||
| * | ? | NC_013198 | 1873857 = | 0 (0.000) | 0 (0.000) | 4/290 | 6.6 | intergenic (‑53/‑48) | LGG_01843/LGG_01844 | hypothetical protein/hypothetical protein |
| ? | NC_013198 | = 1873978 | 48 (0.553) | coding (74/177 nt) | LGG_01844 | hypothetical protein | ||||
| * | ? | NC_013198 | = 241433 | NA (NA) | 6 (0.079) | 3/264 | 6.8 | coding (404/498 nt) | is8 | transposase IS4 family protein |
| ? | NC_013198 | = 588499 | NA (NA) | coding (386/498 nt) | is31 | transposase IS4 family protein | ||||
| * | ? | NC_013198 | = 538694 | 105 (1.286) | 3 (0.037) | 3/282 | 7.1 | coding (255/1068 nt) | ykfB | L‑alanine‑DL‑glutamate epimerase‑like protein |
| ? | NC_013198 | = 538710 | 97 (1.117) | coding (239/1068 nt) | ykfB | L‑alanine‑DL‑glutamate epimerase‑like protein | ||||
| * | ? | NC_013198 | = 1053852 | 88 (1.086) | 3 (0.037) | 3/280 | 7.0 | intergenic (‑285/‑156) | LGG_01038/LGG_01039 | hypothetical protein/lyzozyme M1 |
| ? | NC_013198 | = 1053874 | 80 (0.921) | intergenic (‑307/‑134) | LGG_01038/LGG_01039 | hypothetical protein/lyzozyme M1 | ||||
| * | ? | NC_013198 | 2057609 = | 96 (1.168) | 3 (0.036) | 3/284 | 7.1 | coding (839/960 nt) | LGG_02010 | hypothetical protein |
| ? | NC_013198 | 2057639 = | 92 (1.059) | coding (809/960 nt) | LGG_02010 | hypothetical protein | ||||