mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 102 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_007779 | 1,553,916 | 0 | G | T | 53.1% | 11.5 / 55.4 | 32 | intergenic (+211/+196) | fdnI/Y75_RS07795 | formate dehydrogenase‑N subunit gamma/HigA family addiction module antidote protein |
| * | NC_007779 | 438,443 | 1 | . | T | 46.4% | 41.2 / 72.8 | 28 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 2 | . | C | 46.4% | 42.8 / 71.2 | 28 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 3 | . | G | 46.4% | 43.9 / 72.5 | 28 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 4 | . | G | 46.4% | 44.3 / 72.1 | 28 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 5 | . | C | 46.4% | 43.0 / 71.9 | 28 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 6 | . | A | 46.4% | 48.4 / 71.6 | 28 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 7 | . | A | 46.4% | 42.9 / 72.3 | 28 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 8 | . | A | 46.4% | 44.4 / 72.7 | 28 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 9 | . | C | 46.4% | 42.8 / 71.2 | 28 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 10 | . | C | 46.4% | 42.6 / 72.2 | 28 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 11 | . | G | 46.4% | 43.8 / 71.7 | 28 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 12 | . | C | 46.4% | 40.2 / 69.8 | 28 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 13 | . | C | 46.4% | 42.3 / 71.0 | 28 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 14 | . | G | 46.4% | 44.1 / 72.9 | 28 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 15 | . | C | 46.4% | 42.9 / 70.8 | 28 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 16 | . | T | 46.4% | 45.9 / 70.7 | 28 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 17 | . | A | 46.4% | 48.1 / 70.9 | 28 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 18 | . | C | 46.4% | 45.1 / 78.4 | 28 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 19 | . | T | 46.4% | 44.0 / 73.6 | 28 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_007779 | = 438443 | 1 (0.010) | 54 (0.450) +21 bp |
46/394 | 3.5 | 98.2% | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| ? | NC_007779 | 438444 = | 1 (0.010) | coding (958/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase | |||||
| * | ? | NC_007779 | 4310363 = | NA (NA) | 65 (0.500) | 59/496 | 3.7 | 100% | intergenic (‑287/‑32) | yjcS/Y75_RS21310 | alkyl sulfatase YjcS/IS5‑like element IS5 family transposase |
| ? | NC_007779 | = 4540919 | 0 (0.000) | intergenic (+208/+375) | Y75_RS22495/Y75_RS22500 | hypothetical protein/9‑O‑acetyl‑N‑acetylneuraminic acid deacetylase | |||||
| * | ? | NC_007779 | 438444 = | 11 (0.080) | 67 (0.530) | 54/478 | 4.0 | 84.0% | coding (958/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| ? | NC_007779 | = 438464 | 15 (0.120) | coding (938/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase | |||||
| * | ? | NC_007779 | 4547362 = | 136 (1.040) | 20 (0.160) | 19/478 | 12.4 | 13.3% | intergenic (+49/‑433) | fimE/fimA | type 1 fimbria regulatory protein FimE/metal ABC transporter substrate‑binding lipoprotein/fibrin‑binding adhesin FimA |
| ? | NC_007779 | 4547676 = | 129 (1.030) | intergenic (+363/‑119) | fimE/fimA | type 1 fimbria regulatory protein FimE/metal ABC transporter substrate‑binding lipoprotein/fibrin‑binding adhesin FimA | |||||
| * | ? | NC_007779 | = 4547370 | 138 (1.060) | 17 (0.140) | 17/478 | 13.2 | 11.6% | intergenic (+57/‑425) | fimE/fimA | type 1 fimbria regulatory protein FimE/metal ABC transporter substrate‑binding lipoprotein/fibrin‑binding adhesin FimA |
| ? | NC_007779 | = 4547666 | 126 (1.000) | intergenic (+353/‑129) | fimE/fimA | type 1 fimbria regulatory protein FimE/metal ABC transporter substrate‑binding lipoprotein/fibrin‑binding adhesin FimA | |||||
| * | ? | NC_007779 | = 2069490 | 138 (1.060) | 63 (0.480) | 17/496 | 13.7 | 47.7% | intergenic (‑32/+1) | Y75_RS10470/Y75_RS24935 | IS5‑like element IS5 family transposase/hypothetical protein |
| ? | NC_007779 | = 4540919 | 0 (0.000) | intergenic (+208/+375) | Y75_RS22495/Y75_RS22500 | hypothetical protein/9‑O‑acetyl‑N‑acetylneuraminic acid deacetylase | |||||
| * | ? | NC_007779 | 1413613 = | 139 (1.070) | 8 (0.070) | 7/444 | 17.6 | 6.0% | coding (50/936 nt) | ttcA | tRNA 2‑thiocytidine(32) synthetase TtcA |
| ? | NC_007779 | = 1436672 | 128 (1.100) | intergenic (+39/+227) | Y75_RS24865/uspF | hypothetical protein/universal stress protein UspF | |||||