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 66 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_021214 | 358,511 | 0 | G | A | 38.2% | 217.7 / 97.1 | 166 | intergenic (‑93/‑92) | TMARI_RS01730/TMARI_RS01735 | hypothetical protein/DUF2089 domain‑containing protein |
| * | NC_021214 | 358,524 | 0 | T | A | 35.3% | 284.7 / 58.2 | 150 | intergenic (‑106/‑79) | TMARI_RS01730/TMARI_RS01735 | hypothetical protein/DUF2089 domain‑containing protein |
| * | NC_021214 | 1,239,628 | 0 | T | G | 31.5% | 329.5 / 47.5 | 185 | C97G (TGT→GGT) | TMARI_RS06210 | oxidoreductase |
| * | NC_021214 | 358,545 | 0 | G | T | 28.7% | 382.6 / 63.4 | 157 | intergenic (‑127/‑58) | TMARI_RS01730/TMARI_RS01735 | hypothetical protein/DUF2089 domain‑containing protein |
| * | NC_021214 | 358,560 | 0 | T | A | 28.1% | 391.0 / 43.1 | 160 | intergenic (‑142/‑43) | TMARI_RS01730/TMARI_RS01735 | hypothetical protein/DUF2089 domain‑containing protein |
| * | NC_021214 | 693,623 | 0 | G | T | 27.2% | 288.2 / 68.9 | 152 | A237A (GCC→GCA) | TMARI_RS03400 | cysteine synthase A |
| * | NC_021214 | 724,170 | 0 | A | T | 26.8% | 472.8 / 76.3 | 214 | I257K (ATA→AAA) | TMARI_RS03585 | chemotaxis protein CheA |
| * | NC_021214 | 1,869,446 | 0 | G | T | 26.5% | 365.6 / 41.6 | 153 | intergenic (+58/‑53) | TMARI_RS09635/TMARI_RS09660 | bifunctional UDP‑sugar hydrolase/5'‑nucleotidase/hypothetical protein |
| * | NC_021214 | 622,253 | 0 | G | A | 26.4% | 391.7 / 61.3 | 201 | A48A (GCG→GCA) | TMARI_RS03015 | rod shape‑determining protein |
| * | NC_021214 | 1,869,434 | 0 | T | C | 26.4% | 317.9 / 17.7 | 150 | intergenic (+46/‑65) | TMARI_RS09635/TMARI_RS09660 | bifunctional UDP‑sugar hydrolase/5'‑nucleotidase/hypothetical protein |
| * | NC_021214 | 358,586 | 0 | G | T | 26.0% | 487.7 / 52.0 | 169 | intergenic (‑168/‑17) | TMARI_RS01730/TMARI_RS01735 | hypothetical protein/DUF2089 domain‑containing protein |
| * | NC_021214 | 232,200 | 0 | G | A | 25.9% | 367.5 / 54.0 | 185 | R259Q (CGA→CAA) | TMARI_RS01120 | glycine‑‑tRNA ligase subunit beta |
| * | NC_021214 | 1,762,790 | 0 | A | C | 25.9% | 488.0 / 23.8 | 234 | G39G (GGT→GGG) | TMARI_RS09145 | hypothetical protein |
| * | NC_021214 | 602,920 | 0 | T | G | 25.8% | 401.6 / 20.5 | 187 | V382G (GTT→GGT) L17V (TTG→GTG) | TMARI_RS02930 TMARI_RS02935 | DegT/DnrJ/EryC1/StrS aminotransferase family protein apolipoprotein N‑acyltransferase |
| * | NC_021214 | 1,739,864 | 0 | T | G | 25.6% | 373.1 / 25.1 | 162 | G390G (GGT→GGG) | TMARI_RS09025 | transketolase |
| * | NC_021214 | 26,468 | 0 | C | A | 25.5% | 533.8 / 53.0 | 192 | E32* (GAG→TAG) | TMARI_RS00115 | ABC transporter ATP‑binding protein |
| * | NC_021214 | 622,272 | 0 | A | C | 25.4% | 428.9 / 11.6 | 190 | T55P (ACT→CCT) | TMARI_RS03015 | rod shape‑determining protein |
| * | NC_021214 | 817,108 | 0 | C | T | 25.2% | 349.1 / 41.3 | 148 | F402F (TTC→TTT) | TMARI_RS04060 | hypothetical protein |
| * | NC_021214 | 622,267 | 0 | G | A | 24.6% | 409.7 / 62.2 | 199 | G53E (GGA→GAA) | TMARI_RS03015 | rod shape‑determining protein |
| * | NC_021214 | 1,869,424 | 0 | C | G | 24.2% | 141.5 / 18.7 | 149 | intergenic (+36/‑75) | TMARI_RS09635/TMARI_RS09660 | bifunctional UDP‑sugar hydrolase/5'‑nucleotidase/hypothetical protein |
| Marginal new junction evidence (lowest skew 10 of 34 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_021214 | 157995 = | 251 (0.880) | 9 (0.030) | 6/430 | 23.1 | 3.6% | coding (478/648 nt) | TMARI_RS00740 | lactate utilization protein |
| ? | NC_021214 | 158204 = | 246 (0.900) | coding (1857/1872 nt) | TMARI_RS00745 | DUF4914 domain‑containing protein | |||||
| * | ? | NC_021214 | = 591522 | 246 (0.860) | 6 (0.020) | 6/434 | 23.2 | 2.5% | coding (471/549 nt) | TMARI_RS02865 | DNA polymerase |
| ? | NC_021214 | = 591525 | 234 (0.850) | coding (474/549 nt) | TMARI_RS02865 | DNA polymerase | |||||
| * | ? | NC_021214 | = 360433 | 334 (1.170) | 6 (0.020) | 5/428 | 23.8 | 1.9% | coding (756/1242 nt) | TMARI_RS01750 | MFS transporter |
| ? | NC_021214 | = 360642 | 317 (1.160) | coding (965/1242 nt) | TMARI_RS01750 | MFS transporter | |||||
| * | ? | NC_021214 | 1440262 = | 285 (1.000) | 6 (0.020) | 5/430 | 23.9 | 1.9% | coding (1298/1881 nt) | TMARI_RS07270 | NADH dehydrogenase |
| ? | NC_021214 | 1440572 = | 331 (1.210) | coding (1608/1881 nt) | TMARI_RS07270 | NADH dehydrogenase | |||||
| * | ? | NC_021214 | 1327950 = | 357 (1.250) | 8 (0.030) | 5/430 | 23.9 | 2.4% | coding (408/762 nt) | TMARI_RS06635 | ABC transporter permease |
| ? | NC_021214 | 1328134 = | 319 (1.170) | coding (592/762 nt) | TMARI_RS06635 | ABC transporter permease | |||||
| * | ? | NC_021214 | = 491988 | 296 (1.030) | 6 (0.020) | 5/434 | 24.0 | 1.9% | coding (711/936 nt) | TMARI_RS02360 | RluA family pseudouridine synthase |
| ? | NC_021214 | = 492118 | 318 (1.150) | coding (581/936 nt) | TMARI_RS02360 | RluA family pseudouridine synthase | |||||
| * | ? | NC_021214 | 63321 = | 274 (0.960) | 5 (0.020) | 5/436 | 24.1 | 1.8% | coding (3179/3180 nt) | TMARI_RS00285 | endo‑1,4‑beta‑xylanase A |
| ? | NC_021214 | 63342 = | 279 (1.010) | intergenic (+20/‑36) | TMARI_RS00285/TMARI_RS00290 | endo‑1,4‑beta‑xylanase A/carbohydrate‑binding protein | |||||
| * | ? | NC_021214 | 1071755 = | 291 (1.020) | 6 (0.020) | 5/440 | 24.2 | 1.9% | coding (662/1527 nt) | TMARI_RS05395 | FMN‑binding glutamate synthase family protein |
| ? | NC_021214 | 1071819 = | 339 (1.210) | coding (726/1527 nt) | TMARI_RS05395 | FMN‑binding glutamate synthase family protein | |||||
| * | ? | NC_021214 | 228871 = | 275 (0.960) | 5 (0.020) | 5/440 | 24.2 | 1.8% | coding (104/1425 nt) | TMARI_RS01105 | glycine dehydrogenase |
| ? | NC_021214 | 229168 = | 292 (1.040) | coding (401/1425 nt) | TMARI_RS01105 | glycine dehydrogenase | |||||
| * | ? | NC_021214 | = 1501608 | 304 (1.060) | 5 (0.020) | 4/426 | 24.6 | 1.7% | coding (553/2088 nt) | TMARI_RS07670 | elongation factor G |
| ? | NC_021214 | = 1501747 | 288 (1.060) | coding (414/2088 nt) | TMARI_RS07670 | elongation factor G | |||||