mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.28.1 revision 52323b585d6f
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 32 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | DH1 | 613,770 | 0 | C | A | 31.6% | 265.7 / 43.7 | 214 | intergenic (+631/+392) | garK/yhaC | glycerate 2‑kinase/pentapeptide repeats‑related protein |
| * | DH1 | 936,293 | 0 | T | . | 30.9% | 360.5 / 179.3 | 161 | intergenic (‑27/+7) | ECDH1_RS04620/ECDH1_RS04625 | tRNA‑Met/tRNA‑Met |
| * | DH1 | 936,297 | 0 | A | G | 30.7% | 320.1 / 172.5 | 200 | intergenic (‑31/+3) | ECDH1_RS04620/ECDH1_RS04625 | tRNA‑Met/tRNA‑Met |
| * | DH1 | 2,169,548 | 0 | G | T | 30.6% | 439.4 / 84.7 | 270 | P671Q (CCG→CAG) | rsxC | electron transporter RsxC |
| * | DH1 | 936,169 | 0 | T | . | 29.4% | 248.1 / 109.9 | 106 | intergenic (‑13/+21) | ECDH1_RS04615/ECDH1_RS04620 | tRNA‑Met/tRNA‑Met |
| * | DH1 | 2,169,577 | 0 | T | G | 28.1% | 278.3 / 73.5 | 262 | R661R (CGA→CGC) | rsxC | electron transporter RsxC |
| * | DH1 | 2,169,720 | 0 | C | G | 26.9% | 181.9 / 39.8 | 150 | E614Q (GAA→CAA) | rsxC | electron transporter RsxC |
| * | DH1 | 2,169,673 | 0 | A | T | 26.7% | 134.6 / 36.4 | 158 | R629R (CGT→CGA) | rsxC | electron transporter RsxC |
| * | DH1 | 3,184,585 | 0 | C | A | 26.2% | 308.2 / 44.7 | 149 | intergenic (+8/‑30) | ECDH1_RS15795/ECDH1_RS15800 | tRNA‑Gln/tRNA‑TERM |
| * | DH1 | 3,906,837 | 0 | C | G | 26.1% | 140.1 / 18.4 | 92 | intergenic (+8/‑27) | ECDH1_RS19315/ECDH1_RS19320 | tRNA‑Leu/tRNA‑Leu |
| * | DH1 | 2,326,287 | 0 | G | T | 25.9% | 1001.1 / 97.7 | 490 | intergenic (+207/+200) | yddM/fdnI | transcriptional regulator/formate dehydrogenase nitrate‑inducible cytochrome b556(Fdn) subunit |
| * | DH1 | 613,613 | 0 | T | G | 25.7% | 219.0 / 38.7 | 219 | intergenic (+474/+549) | garK/yhaC | glycerate 2‑kinase/pentapeptide repeats‑related protein |
| * | DH1 | 2,591,513 | 0 | T | G | 25.4% | 246.5 / 49.1 | 279 | D86A (GAC→GCC) | ECDH1_RS12815 | hypothetical protein |
| * | DH1 | 936,278 | 1 | . | T | 25.0% | 251.3 / 133.4 | 104 | intergenic (‑12/+22) | ECDH1_RS04620/ECDH1_RS04625 | tRNA‑Met/tRNA‑Met |
| * | DH1 | 3,448,526 | 0 | A | C | 25.0% | 768.3 / 85.2 | 390 | intergenic (‑86/+70) | malZ/proY | alpha‑glycosidase/proline‑specific permease ProY |
| * | DH1 | 2,169,598 | 0 | G | T | 24.8% | 304.5 / 34.5 | 214 | A654A (GCC→GCA) | rsxC | electron transporter RsxC |
| * | DH1 | 2,169,595 | 0 | G | T | 23.7% | 309.1 / 23.3 | 230 | V655V (GTC→GTA) | rsxC | electron transporter RsxC |
| * | DH1 | 3,447,403 | 0 | A | C | 23.7% | 743.5 / 65.1 | 365 | G346G (GGT→GGG) | malZ | alpha‑glycosidase |
| * | DH1 | 613,597 | 0 | G | C | 22.4% | 377.7 / 41.4 | 268 | intergenic (+458/+565) | garK/yhaC | glycerate 2‑kinase/pentapeptide repeats‑related protein |
| * | DH1 | 2,169,616 | 0 | G | T | 21.9% | 251.9 / 25.8 | 201 | V648V (GTC→GTA) | rsxC | electron transporter RsxC |
| Marginal new junction evidence (lowest skew 10 of 46 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | DH1 | = 2668875 | 347 (0.720) | 179 (0.420) | 124/268 | 6.3 | 38.9% | pseudogene (20/345 nt) | pinE | hypothetical protein |
| ? | DH1 | = 2670672 | 252 (0.590) | coding (306/789 nt) | stfP | integrase | |||||
| * | ? | DH1 | 2668875 = | 305 (0.700) | 159 (0.370) | 114/268 | 8.1 | 34.4% | pseudogene (20/345 nt) | pinE | hypothetical protein |
| ? | DH1 | 2670674 = | NA (NA) | noncoding (1/242 nt) | repeat_region | repeat region | |||||
| * | ? | DH1 | 1355966 = | 186 (0.390) | 137 (0.290) +CTTC |
55/292 | 27.3 | 36.2% | noncoding (76/76 nt) | ECDH1_RS06685 | tRNA‑Val |
| ? | DH1 | = 3099750 | 310 (0.640) | noncoding (1/76 nt) | ECDH1_RS15360 | tRNA‑Lys | |||||
| * | ? | DH1 | 1355966 = | 186 (0.390) | 106 (0.230) +CTTC |
53/292 | 28.1 | 22.7% | noncoding (76/76 nt) | ECDH1_RS06685 | tRNA‑Val |
| ? | DH1 | = 3100565 | 556 (1.150) | noncoding (1/76 nt) | ECDH1_RS15385 | tRNA‑Lys | |||||
| * | ? | DH1 | 1355966 = | 186 (0.390) | 243 (0.520) +CTTC |
53/292 | 28.1 | 57.3% | noncoding (76/76 nt) | ECDH1_RS06685 | tRNA‑Val |
| ? | DH1 | = 3099542 | NA (NA) | noncoding (268/268 nt) | repeat_region | repeat region | |||||
| * | ? | DH1 | = 2590941 | 372 (0.770) | 77 (0.180) | 40/260 | 30.2 | 24.9% | intergenic (+1/‑209) | ECDH1_RS12805/ECDH1_RS12810 | tRNA‑Tyr/tRNA‑Tyr |
| ? | DH1 | 2591414 = | 143 (0.340) | noncoding (199/555 nt) | repeat_region | repeat region | |||||
| * | ? | DH1 | = 1355505 | 400 (0.830) | 65 (0.160) | 37/260 | 31.6 | 18.6% | noncoding (54/348 nt) | repeat_region | repeat region |
| ? | DH1 | 3099693 = | 223 (0.530) | noncoding (58/76 nt) | ECDH1_RS15360 | tRNA‑Lys | |||||
| * | ? | DH1 | 3183985 = | 476 (0.990) | 80 (0.180) +GATTGTTTCTTC |
39/276 | 32.5 | 21.1% | intergenic (+379/‑1) | asnB/ECDH1_RS15770 | asparagine synthetase B/tRNA‑Met |
| ? | DH1 | = 3184256 | 174 (0.360) | intergenic (+2/‑33) | ECDH1_RS15780/ECDH1_RS15785 | tRNA‑Gln/tRNA‑Gln | |||||
| * | ? | DH1 | = 3970042 | 582 (1.210) | 43 (0.090) | 39/282 | 33.2 | 7.4% | intergenic (‑128/‑86) | fimA/ECDH1_RS19620 | type‑1 fimbrial protein, A chain/hypothetical protein |
| ? | DH1 | = 3970338 | 524 (1.160) | intergenic (+22/+58) | ECDH1_RS19620/fimE | hypothetical protein/tyrosine recombinase | |||||
| * | ? | DH1 | = 3099328 | 385 (0.800) | 60 (0.140) | 33/260 | 33.7 | 17.7% | noncoding (54/268 nt) | repeat_region | repeat region |
| ? | DH1 | 3099693 = | 223 (0.530) | noncoding (58/76 nt) | ECDH1_RS15360 | tRNA‑Lys | |||||