mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
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 38 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | DH1 | 936,169 | 0 | T | . | 34.4% | 226.8 / 126.9 | 98 | intergenic (‑13/+21) | ECDH1_RS04615/ECDH1_RS04620 | tRNA‑Met/tRNA‑Met |
| * | DH1 | 936,293 | 0 | T | . | 33.9% | 259.8 / 149.3 | 116 | intergenic (‑27/+7) | ECDH1_RS04620/ECDH1_RS04625 | tRNA‑Met/tRNA‑Met |
| * | DH1 | 613,770 | 0 | C | A | 33.8% | 191.7 / 40.6 | 182 | intergenic (+631/+392) | garK/yhaC | glycerate 2‑kinase/pentapeptide repeats‑related protein |
| * | DH1 | 3,906,832 | 0 | C | A | 31.3% | 137.2 / 11.9 | 98 | intergenic (+3/‑32) | ECDH1_RS19315/ECDH1_RS19320 | tRNA‑Leu/tRNA‑Leu |
| * | DH1 | 936,278 | 1 | . | T | 30.6% | 166.6 / 117.0 | 72 | intergenic (‑12/+22) | ECDH1_RS04620/ECDH1_RS04625 | tRNA‑Met/tRNA‑Met |
| * | DH1 | 3,448,526 | 0 | A | C | 30.2% | 588.0 / 100.3 | 362 | intergenic (‑86/+70) | malZ/proY | alpha‑glycosidase/proline‑specific permease ProY |
| * | DH1 | 2,169,577 | 0 | T | G | 29.9% | 224.8 / 73.2 | 217 | R661R (CGA→CGC) | rsxC | electron transporter RsxC |
| * | DH1 | 3,447,403 | 0 | A | C | 29.6% | 538.5 / 90.5 | 325 | G346G (GGT→GGG) | malZ | alpha‑glycosidase |
| * | DH1 | 2,169,548 | 0 | G | T | 29.3% | 375.5 / 72.7 | 227 | P671Q (CCG→CAG) | rsxC | electron transporter RsxC |
| * | DH1 | 2,326,287 | 0 | G | T | 27.3% | 853.7 / 107.8 | 437 | intergenic (+207/+200) | yddM/fdnI | transcriptional regulator/formate dehydrogenase nitrate‑inducible cytochrome b556(Fdn) subunit |
| * | DH1 | 936,297 | 0 | A | G | 27.2% | 351.5 / 127.0 | 174 | intergenic (‑31/+3) | ECDH1_RS04620/ECDH1_RS04625 | tRNA‑Met/tRNA‑Met |
| * | DH1 | 2,169,720 | 0 | C | G | 27.2% | 196.5 / 45.0 | 160 | E614Q (GAA→CAA) | rsxC | electron transporter RsxC |
| * | DH1 | 613,613 | 0 | T | G | 27.1% | 184.0 / 34.5 | 201 | intergenic (+474/+549) | garK/yhaC | glycerate 2‑kinase/pentapeptide repeats‑related protein |
| * | DH1 | 2,591,513 | 0 | T | G | 26.5% | 202.4 / 46.8 | 250 | D86A (GAC→GCC) | ECDH1_RS12815 | hypothetical protein |
| * | DH1 | 102,731 | 0 | A | C | 25.4% | 507.8 / 53.2 | 268 | intergenic (‑183/+15) | trmL/lldD | tRNA (cytosine(34)‑2'‑O)‑methyltransferase TrmL/alpha‑hydroxy‑acid oxidizing enzyme |
| * | DH1 | 613,597 | 0 | G | C | 25.1% | 281.1 / 42.1 | 234 | intergenic (+458/+565) | garK/yhaC | glycerate 2‑kinase/pentapeptide repeats‑related protein |
| * | DH1 | 3,448,520 | 0 | A | C | 25.1% | 783.5 / 59.9 | 362 | intergenic (‑80/+76) | malZ/proY | alpha‑glycosidase/proline‑specific permease ProY |
| * | DH1 | 2,965,906 | 0 | T | G | 24.5% | 245.5 / 28.2 | 211 | intergenic (+139/‑356) | aqpZ/ybjE | aquaporin/transporter |
| * | DH1 | 3,906,853 | 0 | A | T | 24.3% | 197.3 / 33.7 | 111 | intergenic (+24/‑11) | ECDH1_RS19315/ECDH1_RS19320 | tRNA‑Leu/tRNA‑Leu |
| * | DH1 | 102,618 | 0 | G | C | 23.7% | 615.3 / 55.9 | 236 | intergenic (‑70/+128) | trmL/lldD | tRNA (cytosine(34)‑2'‑O)‑methyltransferase TrmL/alpha‑hydroxy‑acid oxidizing enzyme |
| Marginal new junction evidence (lowest skew 10 of 37 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | DH1 | 1355966 = | 187 (0.440) | 101 (0.250) +CTTC |
55/292 | 25.9 | 23.2% | noncoding (76/76 nt) | ECDH1_RS06685 | tRNA‑Val |
| ? | DH1 | = 3100565 | 500 (1.190) | noncoding (1/76 nt) | ECDH1_RS15385 | tRNA‑Lys | |||||
| * | ? | DH1 | 1355966 = | 187 (0.440) | 133 (0.320) +CTTC |
55/292 | 25.9 | 37.9% | noncoding (76/76 nt) | ECDH1_RS06685 | tRNA‑Val |
| ? | DH1 | = 3099750 | 261 (0.620) | noncoding (1/76 nt) | ECDH1_RS15360 | tRNA‑Lys | |||||
| * | ? | DH1 | 1355966 = | 187 (0.440) | 207 (0.500) +CTTC |
55/292 | 25.9 | 53.2% | noncoding (76/76 nt) | ECDH1_RS06685 | tRNA‑Val |
| ? | DH1 | = 3099542 | NA (NA) | noncoding (268/268 nt) | repeat_region | repeat region | |||||
| * | ? | DH1 | = 1355505 | 385 (0.910) | 58 (0.160) | 32/260 | 33.0 | 18.3% | noncoding (54/348 nt) | repeat_region | repeat region |
| ? | DH1 | 3099693 = | 184 (0.500) | noncoding (58/76 nt) | ECDH1_RS15360 | tRNA‑Lys | |||||
| * | ? | DH1 | 1355844 = | 126 (0.300) | 101 (0.240) +C |
38/298 | 34.2 | 34.4% | intergenic (‑45/+2) | ECDH1_RS06675/ECDH1_RS06680 | tRNA‑Val/tRNA‑Val |
| ? | DH1 | = 3099750 | 261 (0.620) | noncoding (1/76 nt) | ECDH1_RS15360 | tRNA‑Lys | |||||
| * | ? | DH1 | 3183985 = | 453 (1.070) | 72 (0.190) +GATTGTTTCTTC |
32/276 | 34.9 | 20.8% | intergenic (+379/‑1) | asnB/ECDH1_RS15770 | asparagine synthetase B/tRNA‑Met |
| ? | DH1 | = 3184256 | 143 (0.340) | intergenic (+2/‑33) | ECDH1_RS15780/ECDH1_RS15785 | tRNA‑Gln/tRNA‑Gln | |||||
| * | ? | DH1 | = 3970042 | 510 (1.210) | 34 (0.090) | 31/282 | 36.2 | 6.6% | intergenic (‑128/‑86) | fimA/ECDH1_RS19620 | type‑1 fimbrial protein, A chain/hypothetical protein |
| ? | DH1 | = 3970338 | 476 (1.200) | intergenic (+22/+58) | ECDH1_RS19620/fimE | hypothetical protein/tyrosine recombinase | |||||
| * | ? | DH1 | 2326110 = | NA (NA) | 44 (0.130) +29 bp |
20/242 | 38.2 | NA | intergenic (+30/+377) | yddM/fdnI | transcriptional regulator/formate dehydrogenase nitrate‑inducible cytochrome b556(Fdn) subunit |
| ? | DH1 | = 2326436 | NA (NA) | noncoding (148/176 nt) | repeat_region | repeat region | |||||
| * | ? | DH1 | = 2590941 | 349 (0.830) | 69 (0.190) | 23/260 | 38.5 | 24.0% | intergenic (+1/‑209) | ECDH1_RS12805/ECDH1_RS12810 | tRNA‑Tyr/tRNA‑Tyr |
| ? | DH1 | 2591414 = | 135 (0.370) | noncoding (199/555 nt) | repeat_region | repeat region | |||||
| * | ? | DH1 | = 1519281 | 302 (0.720) | 38 (0.100) +AACCTTCTAATT |
25/276 | 39.1 | 12.0% | coding (788/900 nt) | yfaD | transposase |
| ? | DH1 | 1519282 = | 302 (0.720) | coding (787/900 nt) | yfaD | transposase | |||||