mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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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 70 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_007779 | 1,553,904 | 0 | T | C | 70.0% | 45.9 / 39.8 | 50 | intergenic (+199/+208) | fdnI/Y75_RS07795 | formate dehydrogenase‑N subunit gamma/HigA family addiction module antidote protein |
| * | NC_007779 | 1,553,905 | 0 | C | T | 70.0% | 48.3 / 36.4 | 50 | intergenic (+200/+207) | fdnI/Y75_RS07795 | formate dehydrogenase‑N subunit gamma/HigA family addiction module antidote protein |
| * | NC_007779 | 1,553,926 | 0 | T | C | 70.0% | 51.3 / 36.1 | 50 | intergenic (+221/+186) | fdnI/Y75_RS07795 | formate dehydrogenase‑N subunit gamma/HigA family addiction module antidote protein |
| * | NC_007779 | 1,553,916 | 0 | G | T | 55.2% | 14.5 / 95.6 | 58 | intergenic (+211/+196) | fdnI/Y75_RS07795 | formate dehydrogenase‑N subunit gamma/HigA family addiction module antidote protein |
| * | NC_007779 | 1,097,580 | 0 | C | T | 45.3% | 20.6 / 99.2 | 76 | intergenic (+329/+45) | Y75_RS05375/Y75_RS05385 | hypothetical protein/RtT sRNA |
| * | NC_007779 | 438,443 | 1 | . | T | 44.9% | 111.0 / 178.2 | 69 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 2 | . | C | 44.9% | 108.9 / 176.0 | 69 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 3 | . | G | 44.9% | 107.8 / 176.9 | 69 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 4 | . | G | 44.9% | 112.1 / 180.2 | 69 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 5 | . | C | 44.9% | 110.3 / 178.2 | 69 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 6 | . | A | 44.9% | 122.8 / 172.3 | 69 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 7 | . | A | 44.9% | 117.9 / 188.3 | 69 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 8 | . | A | 44.9% | 119.1 / 186.9 | 69 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 9 | . | C | 44.9% | 108.6 / 176.3 | 69 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 10 | . | C | 44.9% | 110.7 / 177.5 | 69 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 11 | . | G | 44.9% | 111.9 / 179.4 | 69 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 12 | . | C | 44.9% | 108.1 / 175.3 | 69 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 13 | . | C | 44.9% | 108.4 / 176.6 | 69 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 14 | . | G | 44.9% | 108.6 / 177.5 | 69 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| * | NC_007779 | 438,443 | 15 | . | C | 44.9% | 107.7 / 175.2 | 69 | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| Marginal new junction evidence (lowest skew 10 of 25 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_007779 | 4310363 = | NA (NA) | 102 (0.530) | 84/496 | 4.8 | 93.6% | intergenic (‑287/‑32) | yjcS/Y75_RS21310 | alkyl sulfatase YjcS/IS5‑like element IS5 family transposase |
| ? | NC_007779 | = 4540919 | 7 (0.040) | intergenic (+208/+375) | Y75_RS22495/Y75_RS22500 | hypothetical protein/9‑O‑acetyl‑N‑acetylneuraminic acid deacetylase | |||||
| * | ? | NC_007779 | = 438443 | 9 (0.050) | 81 (0.460) +21 bp |
63/394 | 5.1 | 88.8% | coding (959/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| ? | NC_007779 | 438444 = | 12 (0.060) | coding (958/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase | |||||
| * | ? | NC_007779 | 438444 = | 33 (0.170) | 82 (0.440) | 70/478 | 6.4 | 74.6% | coding (958/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase |
| ? | NC_007779 | = 438464 | 24 (0.130) | coding (938/1863 nt) | dxs | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase | |||||
| * | ? | NC_007779 | 381401 = | NA (NA) | 79 (0.410) | 67/492 | 7.3 | NA | coding (512/914 nt) | Y75_RS01860 | IS3‑like element IS2 family transposase |
| ? | NC_007779 | = 381812 | NA (NA) | pseudogene (174/174 nt) | Y75_RS23175 | acetyltransferase | |||||
| * | ? | NC_007779 | = 4547370 | 157 (0.820) | 22 (0.120) | 22/478 | 19.6 | 12.3% | intergenic (+57/‑425) | fimE/fimA | type 1 fimbria regulatory protein FimE/metal ABC transporter substrate‑binding lipoprotein/fibrin‑binding adhesin FimA |
| ? | NC_007779 | = 4547666 | 161 (0.870) | intergenic (+353/‑129) | fimE/fimA | type 1 fimbria regulatory protein FimE/metal ABC transporter substrate‑binding lipoprotein/fibrin‑binding adhesin FimA | |||||
| * | ? | NC_007779 | 4547362 = | 156 (0.810) | 21 (0.110) | 21/478 | 20.0 | 11.8% | intergenic (+49/‑433) | fimE/fimA | type 1 fimbria regulatory protein FimE/metal ABC transporter substrate‑binding lipoprotein/fibrin‑binding adhesin FimA |
| ? | NC_007779 | 4547676 = | 162 (0.880) | intergenic (+363/‑119) | fimE/fimA | type 1 fimbria regulatory protein FimE/metal ABC transporter substrate‑binding lipoprotein/fibrin‑binding adhesin FimA | |||||
| * | ? | NC_007779 | = 1217597 | 154 (0.800) | 24 (0.130) | 21/494 | 20.6 | 13.5% | coding (232/237 nt) | Y75_RS06075 | two‑component‑system connector protein YcgZ |
| ? | NC_007779 | = 1398951 | NA (NA) | intergenic (+145/‑128) | Y75_RS07025/Y75_RS07030 | IS5‑like element IS5 family transposase/DUF2534 family protein | |||||
| * | ? | NC_007779 | = 4311557 | NA (NA) | 19 (0.100) | 19/496 | 21.6 | 11.1% | pseudogene (921/921 nt) | alsK | allose kinase |
| ? | NC_007779 | = 4546844 | 153 (0.800) | coding (128/597 nt) | fimE | type 1 fimbria regulatory protein FimE | |||||
| * | ? | NC_007779 | = 3984038 | 180 (0.940) | 18 (0.090) | 18/496 | 22.1 | 9.1% | intergenic (+31/‑85) | hdeA/hdeB | acid‑activated periplasmic chaperone HdeA/acid‑activated periplasmic chaperone HdeB |
| ? | NC_007779 | 3987185 = | NA (NA) | pseudogene (3/379 nt) | Y75_RS19720 | hypothetical protein | |||||
| * | ? | NC_007779 | = 3277112 | 152 (0.850) | 26 (0.140) +CATTCAA |
15/450 | 22.1 | 14.0% | coding (256/336 nt) | prlF | type II toxin‑antitoxin system antitoxin PrlF |
| ? | NC_007779 | 3277113 = | 166 (0.860) | coding (257/336 nt) | prlF | type II toxin‑antitoxin system antitoxin PrlF | |||||