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 38 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | DH1 | 2,993,533 | 0 | A | G | 69.1% | 747.4 / inf | 492 | L55S (TTG→TCG) | rcdA | DNA‑binding transcriptional regulator |
| * | DH1 | 936,169 | 0 | T | . | 40.9% | 227.1 / 176.8 | 112 | intergenic (‑13/+21) | ECDH1_RS04615/ECDH1_RS04620 | tRNA‑Met/tRNA‑Met |
| * | DH1 | 936,297 | 0 | A | G | 40.0% | 197.6 / 189.2 | 167 | intergenic (‑31/+3) | ECDH1_RS04620/ECDH1_RS04625 | tRNA‑Met/tRNA‑Met |
| * | DH1 | 936,278 | 1 | . | T | 38.8% | 117.3 / 139.9 | 67 | intergenic (‑12/+22) | ECDH1_RS04620/ECDH1_RS04625 | tRNA‑Met/tRNA‑Met |
| * | DH1 | 936,293 | 0 | T | . | 38.3% | 260.8 / 192.5 | 131 | intergenic (‑27/+7) | ECDH1_RS04620/ECDH1_RS04625 | tRNA‑Met/tRNA‑Met |
| * | DH1 | 3,906,832 | 0 | C | A | 31.7% | 180.4 / 18.8 | 117 | intergenic (+3/‑32) | ECDH1_RS19315/ECDH1_RS19320 | tRNA‑Leu/tRNA‑Leu |
| * | DH1 | 1,065,605 | 0 | A | T | 31.1% | 308.6 / 148.5 | 226 | intergenic (+40/‑23) | ECDH1_RS05245/ECDH1_RS05250 | tRNA‑Arg/tRNA‑Arg |
| * | DH1 | 3,448,526 | 0 | A | C | 29.5% | 732.7 / 119.4 | 414 | intergenic (‑86/+70) | malZ/proY | alpha‑glycosidase/proline‑specific permease ProY |
| * | DH1 | 2,169,548 | 0 | G | T | 28.6% | 509.4 / 62.1 | 274 | P671Q (CCG→CAG) | rsxC | electron transporter RsxC |
| * | DH1 | 2,591,513 | 0 | T | G | 28.5% | 216.8 / 54.4 | 261 | D86A (GAC→GCC) | ECDH1_RS12815 | hypothetical protein |
| * | DH1 | 2,169,577 | 0 | T | G | 26.7% | 311.3 / 75.1 | 272 | R661R (CGA→CGC) | rsxC | electron transporter RsxC |
| * | DH1 | 613,597 | 0 | G | C | 26.3% | 410.3 / 60.1 | 280 | intergenic (+458/+565) | garK/yhaC | glycerate 2‑kinase/pentapeptide repeats‑related protein |
| * | DH1 | 2,326,287 | 0 | G | T | 26.3% | 1021.1 / 113.7 | 522 | intergenic (+207/+200) | yddM/fdnI | transcriptional regulator/formate dehydrogenase nitrate‑inducible cytochrome b556(Fdn) subunit |
| * | DH1 | 1,065,618 | 0 | A | G | 25.8% | 395.6 / 157.3 | 263 | intergenic (+53/‑10) | ECDH1_RS05245/ECDH1_RS05250 | tRNA‑Arg/tRNA‑Arg |
| * | DH1 | 613,770 | 0 | C | A | 25.4% | 327.8 / 24.1 | 211 | intergenic (+631/+392) | garK/yhaC | glycerate 2‑kinase/pentapeptide repeats‑related protein |
| * | DH1 | 3,906,837 | 0 | C | G | 25.4% | 228.8 / 25.1 | 129 | intergenic (+8/‑27) | ECDH1_RS19315/ECDH1_RS19320 | tRNA‑Leu/tRNA‑Leu |
| * | DH1 | 3,448,523 | 0 | A | C | 24.8% | 888.7 / 81.4 | 414 | intergenic (‑83/+73) | malZ/proY | alpha‑glycosidase/proline‑specific permease ProY |
| * | DH1 | 1,065,614 | 0 | A | G | 23.8% | 389.2 / 143.2 | 250 | intergenic (+49/‑14) | ECDH1_RS05245/ECDH1_RS05250 | tRNA‑Arg/tRNA‑Arg |
| * | DH1 | 2,169,720 | 0 | C | G | 23.5% | 159.6 / 28.0 | 142 | E614Q (GAA→CAA) | rsxC | electron transporter RsxC |
| * | DH1 | 102,618 | 0 | G | C | 23.2% | 889.8 / 56.4 | 328 | 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 63 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | DH1 | 2668875 = | 228 (0.510) | 209 (0.470) | 147/268 | 3.1 | 48.0% | pseudogene (20/345 nt) | pinE | hypothetical protein |
| ? | DH1 | 2670674 = | NA (NA) | noncoding (1/242 nt) | repeat_region | repeat region | |||||
| * | ? | DH1 | 2732072 = | 370 (0.760) | 160 (0.330) | 124/296 | 8.7 | 30.2% | coding (17/1041 nt) | plsX | phosphate acyltransferase |
| ? | DH1 | 3271770 = | NA (NA) | noncoding (3/1345 nt) | repeat_region | repeat region | |||||
| * | ? | DH1 | = 161689 | 466 (0.940) | 165 (0.340) | 123/296 | 8.9 | 29.6% | intergenic (+254/+25) | glyS/insK | glycine‑‑tRNA ligase subunit beta/transposase |
| ? | DH1 | 258177 = | 326 (0.670) | intergenic (+93/+72) | yhhJ/yhhI | inner membrane transport permease YhhJ/H repeat‑associated protein yhhI | |||||
| * | ? | DH1 | = 2732077 | 361 (0.750) | 167 (0.350) | 118/292 | 9.5 | 31.6% | coding (12/1041 nt) | plsX | phosphate acyltransferase |
| ? | DH1 | = 3855990 | NA (NA) | noncoding (1346/1346 nt) | repeat_region | repeat region | |||||
| * | ? | DH1 | 3970988 = | NA (NA) | 170 (0.340) | 113/300 | 11.2 | 24.7% | noncoding (1/770 nt) | repeat_region | repeat region |
| ? | DH1 | = 4170051 | 519 (1.050) | coding (1162/1422 nt) | melB | melibiose carrier protein | |||||
| * | ? | DH1 | 4079177 = | NA (NA) | 147 (0.300) | 110/300 | 11.8 | 21.1% | noncoding (2/771 nt) | repeat_region | repeat region |
| ? | DH1 | 4104586 = | 551 (1.110) | coding (721/732 nt) | rlmB | 23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | DH1 | 2830573 = | NA (NA) | 151 (0.310) | 106/298 | 12.5 | 22.7% | noncoding (4/773 nt) | repeat_region | repeat region |
| ? | DH1 | = 4170050 | 513 (1.040) | coding (1163/1422 nt) | melB | melibiose carrier protein | |||||
| * | ? | DH1 | 3592224 = | NA (NA) | 135 (0.270) | 96/298 | 14.9 | 19.8% | noncoding (183/951 nt) | repeat_region | repeat region |
| ? | DH1 | 4104586 = | 551 (1.110) | coding (721/732 nt) | rlmB | 23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | DH1 | = 3581520 | NA (NA) | 152 (0.310) | 58/300 | 26.7 | 22.7% | noncoding (770/976 nt) | repeat_region | repeat region |
| ? | DH1 | = 4170051 | 519 (1.050) | coding (1162/1422 nt) | melB | melibiose carrier protein | |||||
| * | ? | DH1 | 3183985 = | 437 (0.880) | 97 (0.210) +GATTGTTTCTTC |
46/276 | 29.0 | 25.6% | intergenic (+379/‑1) | asnB/ECDH1_RS15770 | asparagine synthetase B/tRNA‑Met |
| ? | DH1 | = 3184256 | 175 (0.350) | intergenic (+2/‑33) | ECDH1_RS15780/ECDH1_RS15785 | tRNA‑Gln/tRNA‑Gln | |||||