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 41 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | DH1 | 2,764,695 | 0 | A | T | 78.0% | 798.2 / 204.4 | 366 | T149T (ACA→ACT) | mdtG | multidrug resistance protein MdtG |
| * | DH1 | 2,187,566 | 0 | G | T | 76.8% | 722.2 / 271.7 | 359 | P354Q (CCG→CAG) | ydgA | hypothetical protein |
| * | DH1 | 1,456,626 | 0 | A | C | 73.7% | 877.9 / inf | 423 | Q47P (CAG→CCG) | yfcF | glutathione S‑transferase |
| * | DH1 | 1,509,485 | 0 | G | T | 73.4% | 697.7 / inf | 414 | T139T (ACC→ACA) | arnC | undecaprenyl‑phosphate 4‑deoxy‑4‑formamido‑L‑arabinose transferase |
| * | DH1 | 810,334 | 0 | G | A | 72.7% | 927.0 / inf | 541 | W88* (TGG→TAG) | gapA | D‑erythrose‑4‑phosphate dehydrogenase |
| * | DH1 | 477,265 | 0 | T | G | 68.0% | 925.9 / inf | 537 | N195H (AAC→CAC) | accC | acetyl‑CoA carboxylase biotin carboxylase subunit |
| * | DH1 | 936,169 | 0 | T | . | 35.8% | 220.9 / 126.6 | 97 | intergenic (‑13/+21) | ECDH1_RS04615/ECDH1_RS04620 | tRNA‑Met/tRNA‑Met |
| * | DH1 | 2,169,577 | 0 | T | G | 33.0% | 180.9 / 71.6 | 221 | R661R (CGA→CGC) | rsxC | electron transporter RsxC |
| * | DH1 | 3,906,832 | 0 | C | A | 33.0% | 148.7 / 16.0 | 97 | intergenic (+3/‑32) | ECDH1_RS19315/ECDH1_RS19320 | tRNA‑Leu/tRNA‑Leu |
| * | DH1 | 936,293 | 0 | T | . | 32.4% | 307.3 / 166.7 | 144 | intergenic (‑27/+7) | ECDH1_RS04620/ECDH1_RS04625 | tRNA‑Met/tRNA‑Met |
| * | DH1 | 2,326,287 | 0 | G | T | 31.5% | 668.9 / 126.0 | 407 | intergenic (+207/+200) | yddM/fdnI | transcriptional regulator/formate dehydrogenase nitrate‑inducible cytochrome b556(Fdn) subunit |
| * | DH1 | 3,906,837 | 0 | C | G | 28.9% | 161.0 / 25.6 | 105 | intergenic (+8/‑27) | ECDH1_RS19315/ECDH1_RS19320 | tRNA‑Leu/tRNA‑Leu |
| * | DH1 | 2,169,548 | 0 | G | T | 28.6% | 364.9 / 72.3 | 228 | P671Q (CCG→CAG) | rsxC | electron transporter RsxC |
| * | DH1 | 936,297 | 0 | A | G | 26.9% | 372.4 / 146.2 | 203 | intergenic (‑31/+3) | ECDH1_RS04620/ECDH1_RS04625 | tRNA‑Met/tRNA‑Met |
| * | DH1 | 613,770 | 0 | C | A | 26.0% | 257.6 / 24.6 | 210 | intergenic (+631/+392) | garK/yhaC | glycerate 2‑kinase/pentapeptide repeats‑related protein |
| * | DH1 | 2,169,720 | 0 | C | G | 25.9% | 151.3 / 45.5 | 152 | E614Q (GAA→CAA) | rsxC | electron transporter RsxC |
| * | DH1 | 613,597 | 0 | G | C | 25.8% | 395.2 / 49.9 | 266 | intergenic (+458/+565) | garK/yhaC | glycerate 2‑kinase/pentapeptide repeats‑related protein |
| * | DH1 | 1,065,605 | 0 | A | T | 25.6% | 330.3 / 110.0 | 220 | intergenic (+40/‑23) | ECDH1_RS05245/ECDH1_RS05250 | tRNA‑Arg/tRNA‑Arg |
| * | DH1 | 3,448,526 | 0 | A | C | 25.5% | 775.2 / 85.2 | 418 | intergenic (‑86/+70) | malZ/proY | alpha‑glycosidase/proline‑specific permease ProY |
| * | DH1 | 3,184,585 | 0 | C | A | 25.4% | 366.5 / 35.5 | 182 | intergenic (+8/‑30) | ECDH1_RS15795/ECDH1_RS15800 | tRNA‑Gln/tRNA‑TERM |
| Marginal new junction evidence (lowest skew 10 of 43 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | DH1 | = 1104656 | 283 (0.640) | 70 (0.160) +CCAGAC |
49/272 | 10.5 | 19.4% | intergenic (+3959/‑748) | ECDH1_RS05445/ypjA | hypothetical protein/ATPase |
| ? | DH1 | 1104657 = | 306 (0.660) | intergenic (+3960/‑747) | ECDH1_RS05445/ypjA | hypothetical protein/ATPase | |||||
| * | ? | DH1 | 1355966 = | 162 (0.350) | 122 (0.270) +CTTC |
52/292 | 10.8 | 35.7% | noncoding (76/76 nt) | ECDH1_RS06685 | tRNA‑Val |
| ? | DH1 | = 3099750 | 289 (0.620) | noncoding (1/76 nt) | ECDH1_RS15360 | tRNA‑Lys | |||||
| * | ? | DH1 | 1355966 = | 162 (0.350) | 96 (0.210) +CTTC |
50/292 | 11.1 | 21.9% | noncoding (76/76 nt) | ECDH1_RS06685 | tRNA‑Val |
| ? | DH1 | = 3100565 | 540 (1.160) | noncoding (1/76 nt) | ECDH1_RS15385 | tRNA‑Lys | |||||
| * | ? | DH1 | 1355966 = | 162 (0.350) | 188 (0.410) +CTTC |
50/292 | 11.1 | 54.4% | noncoding (76/76 nt) | ECDH1_RS06685 | tRNA‑Val |
| ? | DH1 | = 3099542 | NA (NA) | noncoding (268/268 nt) | repeat_region | repeat region | |||||
| * | ? | DH1 | 3183985 = | 466 (1.000) | 68 (0.160) +GATTGTTTCTTC |
33/276 | 14.0 | 19.0% | intergenic (+379/‑1) | asnB/ECDH1_RS15770 | asparagine synthetase B/tRNA‑Met |
| ? | DH1 | = 3184256 | 166 (0.360) | intergenic (+2/‑33) | ECDH1_RS15780/ECDH1_RS15785 | tRNA‑Gln/tRNA‑Gln | |||||
| * | ? | DH1 | = 2590941 | 301 (0.640) | 50 (0.120) | 28/260 | 14.7 | 21.2% | intergenic (+1/‑209) | ECDH1_RS12805/ECDH1_RS12810 | tRNA‑Tyr/tRNA‑Tyr |
| ? | DH1 | 2591414 = | 110 (0.270) | noncoding (199/555 nt) | repeat_region | repeat region | |||||
| * | ? | DH1 | = 1355505 | 439 (0.940) | 52 (0.130) | 28/260 | 14.7 | 15.1% | noncoding (54/348 nt) | repeat_region | repeat region |
| ? | DH1 | 3099693 = | 204 (0.500) | noncoding (58/76 nt) | ECDH1_RS15360 | tRNA‑Lys | |||||
| * | ? | DH1 | 1355966 = | 162 (0.350) | 105 (0.230) +CTC |
29/294 | 15.7 | 32.2% | noncoding (76/76 nt) | ECDH1_RS06685 | tRNA‑Val |
| ? | DH1 | = 3099750 | 289 (0.620) | noncoding (1/76 nt) | ECDH1_RS15360 | tRNA‑Lys | |||||
| * | ? | DH1 | = 1519281 | 318 (0.680) | 36 (0.080) +AACCTTCTAATT |
26/276 | 15.8 | 11.0% | coding (788/900 nt) | yfaD | transposase |
| ? | DH1 | 1519282 = | 318 (0.680) | coding (787/900 nt) | yfaD | transposase | |||||
| * | ? | DH1 | 1355844 = | 113 (0.240) | 78 (0.170) +C |
29/298 | 15.8 | 28.1% | intergenic (‑45/+2) | ECDH1_RS06675/ECDH1_RS06680 | tRNA‑Val/tRNA‑Val |
| ? | DH1 | = 3099750 | 289 (0.620) | noncoding (1/76 nt) | ECDH1_RS15360 | tRNA‑Lys | |||||