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 50 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 | 47.4% | ‑5.2 / 21.6 | 19 | G501G (GGA→GGG) | TMARI_RS02175 | methyl‑accepting chemotaxis protein 1 |
| * | NC_021214 | 358,511 | 0 | G | A | 33.5% | 232.5 / 65.7 | 159 | intergenic (‑93/‑92) | TMARI_RS01730/TMARI_RS01735 | hypothetical protein/DUF2089 domain‑containing protein |
| * | NC_021214 | 769,661 | 0 | A | G | 31.8% | 217.7 / 96.0 | 173 | S296P (TCG→CCG) | TMARI_RS03820 | S41 family peptidase |
| * | NC_021214 | 358,524 | 0 | T | A | 31.2% | 319.0 / 47.0 | 158 | intergenic (‑106/‑79) | TMARI_RS01730/TMARI_RS01735 | hypothetical protein/DUF2089 domain‑containing protein |
| * | NC_021214 | 232,200 | 0 | G | A | 29.2% | 482.9 / 108.5 | 279 | R259Q (CGA→CAA) | TMARI_RS01120 | glycine‑‑tRNA ligase subunit beta |
| * | NC_021214 | 480,443 | 0 | T | G | 28.1% | 445.7 / 74.7 | 298 | G682G (GGT→GGG) | TMARI_RS02340 | DNA‑directed RNA polymerase subunit beta |
| * | NC_021214 | 769,657 | 0 | G | T | 28.0% | 225.0 / 60.3 | 169 | A297D (GCC→GAC) ‡ | TMARI_RS03820 | S41 family peptidase |
| * | NC_021214 | 769,664 | 0 | C | T | 27.1% | 246.9 / 64.2 | 174 | G295R (GGA→AGA) | TMARI_RS03820 | S41 family peptidase |
| * | NC_021214 | 769,656 | 0 | G | C | 26.8% | 309.3 / 75.0 | 169 | A297A (GCC→GCG) ‡ | TMARI_RS03820 | S41 family peptidase |
| * | NC_021214 | 358,515 | 0 | C | G | 26.6% | 352.9 / 34.6 | 158 | intergenic (‑97/‑88) | TMARI_RS01730/TMARI_RS01735 | hypothetical protein/DUF2089 domain‑containing protein |
| * | NC_021214 | 693,623 | 0 | G | T | 26.5% | 344.3 / 94.4 | 212 | A237A (GCC→GCA) | TMARI_RS03400 | cysteine synthase A |
| * | NC_021214 | 769,662 | 0 | T | C | 26.2% | 277.7 / 55.5 | 174 | G295G (GGA→GGG) | TMARI_RS03820 | S41 family peptidase |
| * | NC_021214 | 1,239,628 | 0 | T | G | 26.1% | 379.0 / 40.6 | 229 | C97G (TGT→GGT) | TMARI_RS06210 | oxidoreductase |
| * | NC_021214 | 401,691 | 0 | G | T | 25.6% | 449.6 / 47.7 | 180 | L130L (CTC→CTA) | TMARI_RS01945 | endonuclease III domain‑containing protein |
| * | NC_021214 | 769,658 | 0 | C | T | 25.3% | 243.3 / 57.8 | 170 | A297T (GCC→ACC) ‡ | TMARI_RS03820 | S41 family peptidase |
| * | NC_021214 | 693,643 | 0 | T | A | 25.0% | 401.3 / 72.9 | 208 | T231S (ACC→TCC) | TMARI_RS03400 | cysteine synthase A |
| * | NC_021214 | 1,869,434 | 0 | T | C | 25.0% | 402.6 / 19.0 | 196 | intergenic (+46/‑65) | TMARI_RS09635/TMARI_RS09660 | bifunctional UDP‑sugar hydrolase/5'‑nucleotidase/hypothetical protein |
| * | NC_021214 | 693,637 | 0 | C | T | 24.9% | 311.8 / 68.9 | 204 | E233K (GAG→AAG) | TMARI_RS03400 | cysteine synthase A |
| * | NC_021214 | 656,613 | 0 | A | C | 24.3% | 434.1 / 45.5 | 222 | G234G (GGT→GGG) | TMARI_RS03190 | glycosyl transferase family 1 |
| * | NC_021214 | 1,777,055 | 0 | A | T | 24.0% | 379.6 / 35.9 | 181 | N62K (AAT→AAA) | TMARI_RS09225 | type I‑B CRISPR‑associated protein Cas5 |
| Marginal new junction evidence (lowest skew 10 of 43 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_021214 | = 1021271 | 440 (1.370) | 48 (0.150) +ACAA |
17/448 | 14.6 | 10.0% | coding (406/441 nt) | TMARI_RS05125 | transposase |
| ? | NC_021214 | 1021272 = | 440 (1.360) | coding (405/441 nt) | TMARI_RS05125 | transposase | |||||
| * | ? | NC_021214 | 1020436 = | 289 (0.890) | 9 (0.030) | 7/446 | 19.5 | 3.1% | coding (16/555 nt) | TMARI_RS05115 | diguanylate cyclase |
| ? | NC_021214 | = 1020432 | 284 (0.900) | coding (20/555 nt) | TMARI_RS05115 | diguanylate cyclase | |||||
| * | ? | NC_021214 | 1071755 = | 356 (1.100) | 10 (0.030) | 7/448 | 19.6 | 2.7% | coding (662/1527 nt) | TMARI_RS05395 | FMN‑binding glutamate synthase family protein |
| ? | NC_021214 | 1071819 = | 364 (1.150) | coding (726/1527 nt) | TMARI_RS05395 | FMN‑binding glutamate synthase family protein | |||||
| * | ? | NC_021214 | 1458116 = | 310 (0.960) | 8 (0.030) | 6/434 | 19.9 | 2.8% | coding (199/333 nt) | TMARI_RS07355 | anti‑sigma factor antagonist |
| ? | NC_021214 | 1458229 = | 262 (0.850) | coding (312/333 nt) | TMARI_RS07355 | anti‑sigma factor antagonist | |||||
| * | ? | NC_021214 | = 447895 | 364 (1.130) | 10 (0.030) | 6/436 | 19.9 | 2.9% | coding (682/1308 nt) | TMARI_RS02170 | oxidoreductase |
| ? | NC_021214 | = 448238 | 316 (1.030) | coding (339/1308 nt) | TMARI_RS02170 | oxidoreductase | |||||
| * | ? | NC_021214 | 1327950 = | 342 (1.060) | 9 (0.030) | 6/438 | 20.0 | 2.8% | coding (408/762 nt) | TMARI_RS06635 | ABC transporter permease |
| ? | NC_021214 | 1328134 = | 292 (0.940) | coding (592/762 nt) | TMARI_RS06635 | ABC transporter permease | |||||
| * | ? | NC_021214 | = 1519042 | 244 (0.750) | 6 (0.020) | 5/436 | 20.7 | 2.5% | coding (203/225 nt) | TMARI_RS07775 | hypothetical protein |
| ? | NC_021214 | = 1519047 | 233 (0.760) | coding (198/225 nt) | TMARI_RS07775 | hypothetical protein | |||||
| * | ? | NC_021214 | 157995 = | 339 (1.050) | 9 (0.030) | 5/438 | 20.7 | 2.7% | coding (478/648 nt) | TMARI_RS00740 | lactate utilization protein |
| ? | NC_021214 | 158204 = | 315 (1.020) | coding (1857/1872 nt) | TMARI_RS00745 | DUF4914 domain‑containing protein | |||||
| * | ? | NC_021214 | = 1488352 | 291 (0.900) | 6 (0.020) | 5/440 | 20.8 | 1.9% | coding (1240/1296 nt) | TMARI_RS07555 | protein translocase subunit SecY |
| ? | NC_021214 | = 1488914 | 330 (1.060) | coding (678/1296 nt) | TMARI_RS07555 | protein translocase subunit SecY | |||||
| * | ? | NC_021214 | 804804 = | 395 (1.220) | 7 (0.020) | 4/412 | 20.8 | 2.0% | coding (554/603 nt) | TMARI_RS03980 | hypothetical protein |
| ? | NC_021214 | 1044289 = | 338 (1.160) | intergenic (+117/‑73) | TMARI_RS05230/TMARI_RS05235 | hypothetical protein/transposase | |||||