mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.32.0 revision 6ff6de7d1b87
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 46 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_021214 | 449,056 | 0 | T | C | 40.0% | 5.8 / 18.4 | 20 | G501G (GGA→GGG) | TMARI_RS02175 | methyl‑accepting chemotaxis protein 1 |
| * | NC_021214 | 769,661 | 0 | A | G | 39.3% | 89.0 / 126.0 | 150 | S296P (TCG→CCG) | TMARI_RS03820 | S41 family peptidase |
| * | NC_021214 | 769,657 | 0 | G | T | 38.9% | 96.8 / 98.0 | 149 | A297D (GCC→GAC) ‡ | TMARI_RS03820 | S41 family peptidase |
| * | NC_021214 | 769,656 | 0 | G | C | 37.0% | 152.3 / 109.4 | 149 | A297A (GCC→GCG) ‡ | TMARI_RS03820 | S41 family peptidase |
| * | NC_021214 | 769,664 | 0 | C | T | 35.3% | 163.8 / 91.0 | 153 | G295R (GGA→AGA) | TMARI_RS03820 | S41 family peptidase |
| * | NC_021214 | 769,648 | 0 | G | T | 34.4% | 151.1 / 109.3 | 151 | S300Y (TCC→TAC) | TMARI_RS03820 | S41 family peptidase |
| * | NC_021214 | 1,478,798 | 1 | . | A | 34.2% | 197.3 / inf | 202 | coding (22/1281 nt) | TMARI_RS07485 | HD domain‑containing protein |
| * | NC_021214 | 1,478,798 | 2 | . | A | 34.2% | 194.0 / inf | 202 | coding (22/1281 nt) | TMARI_RS07485 | HD domain‑containing protein |
| * | NC_021214 | 1,478,798 | 3 | . | A | 34.2% | 192.5 / inf | 202 | coding (22/1281 nt) | TMARI_RS07485 | HD domain‑containing protein |
| * | NC_021214 | 1,478,798 | 4 | . | G | 34.2% | 234.8 / inf | 202 | coding (22/1281 nt) | TMARI_RS07485 | HD domain‑containing protein |
| * | NC_021214 | 1,478,798 | 5 | . | A | 34.2% | 188.4 / inf | 202 | coding (22/1281 nt) | TMARI_RS07485 | HD domain‑containing protein |
| * | NC_021214 | 1,478,798 | 6 | . | A | 34.2% | 188.8 / inf | 202 | coding (22/1281 nt) | TMARI_RS07485 | HD domain‑containing protein |
| * | NC_021214 | 1,478,798 | 7 | . | T | 34.2% | 188.6 / inf | 202 | coding (22/1281 nt) | TMARI_RS07485 | HD domain‑containing protein |
| * | NC_021214 | 1,478,798 | 8 | . | T | 34.2% | 188.7 / inf | 202 | coding (22/1281 nt) | TMARI_RS07485 | HD domain‑containing protein |
| * | NC_021214 | 1,478,798 | 9 | . | T | 34.2% | 189.1 / inf | 202 | coding (22/1281 nt) | TMARI_RS07485 | HD domain‑containing protein |
| * | NC_021214 | 1,478,798 | 10 | . | T | 34.2% | 186.8 / inf | 202 | coding (22/1281 nt) | TMARI_RS07485 | HD domain‑containing protein |
| * | NC_021214 | 769,660 | 0 | G | T | 33.1% | 182.1 / 73.5 | 152 | S296* (TCG→TAG) | TMARI_RS03820 | S41 family peptidase |
| * | NC_021214 | 769,662 | 0 | T | C | 32.7% | 209.6 / 73.5 | 152 | G295G (GGA→GGG) | TMARI_RS03820 | S41 family peptidase |
| * | NC_021214 | 769,658 | 0 | C | T | 32.2% | 148.0 / 80.6 | 150 | A297T (GCC→ACC) ‡ | TMARI_RS03820 | S41 family peptidase |
| * | NC_021214 | 358,511 | 0 | G | A | 30.2% | 292.1 / 75.1 | 173 | intergenic (‑93/‑92) | TMARI_RS01730/TMARI_RS01735 | hypothetical protein/DUF2089 domain‑containing protein |
| Marginal new junction evidence (lowest skew 10 of 100 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_021214 | = 1478798 | 118 (0.370) | 96 (0.300) +AAAGAATTTT |
70/410 | 4.0 | 44.5% | coding (22/1281 nt) | TMARI_RS07485 | HD domain‑containing protein |
| ? | NC_021214 | 1478799 = | 127 (0.380) | coding (23/1281 nt) | TMARI_RS07485 | HD domain‑containing protein | |||||
| * | ? | NC_021214 | = 447895 | 328 (0.980) | 32 (0.100) | 13/428 | 17.1 | 8.9% | coding (682/1308 nt) | TMARI_RS02170 | oxidoreductase |
| ? | NC_021214 | = 448238 | 341 (1.070) | coding (339/1308 nt) | TMARI_RS02170 | oxidoreductase | |||||
| * | ? | NC_021214 | = 256338 | 314 (0.950) | 30 (0.090) +ATA |
13/438 | 17.4 | 8.8% | coding (1191/1272 nt) | TMARI_RS01235 | glucose‑1‑phosphate adenylyltransferase |
| ? | NC_021214 | 256339 = | 315 (0.940) | coding (1192/1272 nt) | TMARI_RS01235 | glucose‑1‑phosphate adenylyltransferase | |||||
| * | ? | NC_021214 | = 1805887 | NA (NA) | 6 (0.020) +51 bp |
5/348 | 19.5 | 1.7% | coding (374/390 nt) | TMARI_RS09375 | IS200/IS605 family transposase |
| ? | NC_021214 | 1806312 = | 459 (1.370) | coding (635/663 nt) | TMARI_RS09380 | methyl‑accepting chemotaxis protein | |||||
| * | ? | NC_021214 | 804804 = | 379 (1.130) | 7 (0.020) | 6/404 | 20.4 | 2.0% | coding (554/603 nt) | TMARI_RS03980 | hypothetical protein |
| ? | NC_021214 | 1044289 = | 337 (1.120) | intergenic (+117/‑73) | TMARI_RS05230/TMARI_RS05235 | hypothetical protein/transposase | |||||
| * | ? | NC_021214 | = 1327959 | 365 (1.090) | 9 (0.030) | 7/430 | 20.5 | 2.5% | coding (417/762 nt) | TMARI_RS06635 | ABC transporter permease |
| ? | NC_021214 | = 1328123 | 364 (1.140) | coding (581/762 nt) | TMARI_RS06635 | ABC transporter permease | |||||
| * | ? | NC_021214 | 1091192 = | 297 (0.890) | 7 (0.020) | 7/432 | 20.5 | 2.3% | coding (1596/2961 nt) | TMARI_RS05475 | glycoside hydrolase |
| ? | NC_021214 | 1091277 = | 300 (0.930) | coding (1681/2961 nt) | TMARI_RS05475 | glycoside hydrolase | |||||
| * | ? | NC_021214 | 911818 = | 339 (1.010) | 11 (0.030) | 7/434 | 20.6 | 3.2% | coding (416/1131 nt) | TMARI_RS04550 | 1‑deoxy‑D‑xylulose‑5‑phosphate reductoisomerase |
| ? | NC_021214 | 911918 = | 345 (1.070) | coding (516/1131 nt) | TMARI_RS04550 | 1‑deoxy‑D‑xylulose‑5‑phosphate reductoisomerase | |||||
| * | ? | NC_021214 | 486872 = | 370 (1.100) | 7 (0.020) | 7/434 | 20.6 | 2.2% | coding (4667/5073 nt) | TMARI_RS02345 | DNA‑directed RNA polymerase subunit beta' |
| ? | NC_021214 | 487340 = | 278 (0.860) | coding (1834/1845 nt) | TMARI_RS02350 | ABC transporter substrate‑binding protein | |||||
| * | ? | NC_021214 | = 1501608 | 355 (1.060) | 8 (0.030) | 6/426 | 21.0 | 2.4% | coding (553/2088 nt) | TMARI_RS07670 | elongation factor G |
| ? | NC_021214 | = 1501747 | 312 (0.980) | coding (414/2088 nt) | TMARI_RS07670 | elongation factor G | |||||