mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.38.1
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 632 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | Xen14_126 | 2,063 | 0 | C | A | 79.8% | 1744.0 / inf | 851 | L93I (CTT→ATT) | Xen14_04726 | hypothetical protein |
| * | Xen14_191 | 160 | 0 | T | C | 79.7% | 459.0 / 122.6 | 345 | intergenic (–/–) | –/– | –/– |
| * | Xen14_126 | 2,066 | 0 | A | G | 79.4% | 1485.9 / inf | 859 | T94A (ACT→GCT) | Xen14_04726 | hypothetical protein |
| * | Xen14_126 | 2,068 | 0 | T | G | 78.9% | 1928.5 / inf | 863 | T94T (ACT→ACG) | Xen14_04726 | hypothetical protein |
| * | Xen14_126 | 1,987 | 0 | A | G | 77.8% | 2056.8 / inf | 1254 | T67T (ACA→ACG) | Xen14_04726 | hypothetical protein |
| * | Xen14_138 | 1,284 | 0 | A | G | 76.6% | 349.3 / 101.2 | 239 | intergenic (‑57/–) | scrY_2/– | Sucrose porin/– |
| * | Xen14_17 | 79,627 | 0 | T | C | 76.3% | 973.3 / inf | 1111 | S215G (AGC→GGC) ‡ | Xen14_02064 | IS4 family transposase ISEc13 |
| * | Xen14_17 | 79,628 | 0 | T | G | 76.1% | 940.0 / inf | 1113 | T214T (ACA→ACC) | Xen14_02064 | IS4 family transposase ISEc13 |
| * | Xen14_17 | 79,624 | 0 | T | G | 76.1% | 932.6 / inf | 1109 | S216R (AGC→CGC) | Xen14_02064 | IS4 family transposase ISEc13 |
| * | Xen14_17 | 79,625 | 0 | G | A | 76.1% | 961.9 / inf | 1111 | S215S (AGC→AGT) ‡ | Xen14_02064 | IS4 family transposase ISEc13 |
| * | Xen14_126 | 1,855 | 0 | T | G | 76.0% | 2105.9 / inf | 1461 | V23V (GTT→GTG) | Xen14_04726 | hypothetical protein |
| * | Xen14_38 | 48,337 | 0 | A | G | 74.6% | 588.4 / 257.8 | 529 | Y167H (TAC→CAC) | Xen14_03355 | IS21 family transposase IS100kyp |
| * | Xen14_28 | 276 | 0 | T | C | 74.3% | 299.1 / 103.2 | 214 | intergenic (–/‑309) | –/gadC | –/putative glutamate/gamma‑aminobutyrate antiporter |
| * | Xen14_131 | 1,401 | 0 | A | C | 73.4% | 143.6 / 129.2 | 192 | L45W (TTG→TGG) | Xen14_04738 | hypothetical protein |
| * | Xen14_17 | 79,607 | 0 | A | G | 73.2% | 516.5 / inf | 817 | V221V (GTT→GTC) | Xen14_02064 | IS4 family transposase ISEc13 |
| * | Xen14_28 | 233 | 0 | A | G | 72.7% | 256.0 / 102.4 | 198 | intergenic (–/‑352) | –/gadC | –/putative glutamate/gamma‑aminobutyrate antiporter |
| * | Xen14_70 | 14,319 | 0 | G | A | 72.7% | 153.0 / 74.5 | 144 | intergenic (+898/–) | Xen14_04299/– | hypothetical protein/– |
| * | Xen14_131 | 1,414 | 0 | A | C | 72.0% | 143.5 / 133.5 | 189 | Y41D (TAT→GAT) | Xen14_04738 | hypothetical protein |
| * | Xen14_70 | 14,316 | 0 | A | T | 71.8% | 150.7 / 107.1 | 144 | intergenic (+895/–) | Xen14_04299/– | hypothetical protein/– |
| * | Xen14_28 | 78 | 0 | T | C | 71.6% | 124.9 / 58.5 | 109 | intergenic (–/‑507) | –/gadC | –/putative glutamate/gamma‑aminobutyrate antiporter |
| Marginal new junction evidence (lowest skew 10 of 226 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | Xen14_168 | 296 = | 1849 (1.190) | 112 (0.140) | 57/296 | 0.0 | 5.7% | coding (223/459 nt) | Xen14_04774 | IS200/IS605 family transposase IS200C |
| ? | Xen14_190 | 374 = | NA (NA) | intergenic (–/–) | –/– | –/– | |||||
| * | ? | Xen14_1 | = 242479 | 1279 (14.250) | 303 (3.400) | 102/286 | 0.0 | 19.7% | coding (67/375 nt) | Xen14_00217 | IS3 family transposase ISLad1 |
| ? | Xen14_186 | 394 = | NA (NA) | intergenic (‑103/–) | Xen14_04784/– | IS3 family transposase ISCfr6/– | |||||
| * | ? | Xen14_168 | = 298 | 1842 (1.190) | 86 (0.110) | 50/296 | 0.2 | 4.5% | coding (221/459 nt) | Xen14_04774 | IS200/IS605 family transposase IS200C |
| ? | Xen14_94 | 7510 = | NA (NA) | intergenic (‑130/–) | Xen14_04561/– | hypothetical protein/– | |||||
| * | ? | Xen14_12 | 25 = | 1077 (12.020) | 53 (0.040) | 44/280 | 0.9 | 9.4% | intergenic (–/+303) | –/Xen14_01540 | –/hypothetical protein |
| ? | Xen14_166 | = 677 | 0 (0.000) | intergenic (–/–) | –/– | –/– | |||||
| * | ? | Xen14_166 | = 330 | 1468 (0.560) | 110 (0.080) | 56/296 | 1.1 | 12.2% | intergenic (–/–) | –/– | –/– |
| ? | Xen14_38 | 48182 = | 117 (0.950) | intergenic (+768/+108) | Xen14_03354/Xen14_03355 | hypothetical protein/IS21 family transposase IS100kyp | |||||
| * | ? | Xen14_180 | = 75 | NA (NA) | 101 (0.240) | 59/296 | 1.3 | 9.7% | intergenic (–/–) | –/– | –/– |
| ? | Xen14_202 | = 280 | 942 (1.340) | intergenic (–/–) | –/– | –/– | |||||
| * | ? | Xen14_118 | 3306 = | NA (NA) | 49 (0.600) | 22/274 | 1.9 | 4.7% | intergenic (+47/–) | agp/– | Glucose‑1‑phosphatase/– |
| ? | Xen14_20 | 75235 = | 1076 (10.300) | coding (465/735 nt) | Xen14_02292 | hypothetical protein | |||||
| * | ? | Xen14_138 | 1232 = | 96 (0.730) | 106 (0.250) | 58/296 | 2.0 | 16.9% | intergenic (‑5/–) | scrY_2/– | Sucrose porin/– |
| ? | Xen14_202 | 276 = | 946 (1.350) | intergenic (–/–) | –/– | –/– | |||||
| * | ? | Xen14_138 | 1232 = | 96 (0.730) | 74 (0.050) | 57/296 | 2.1 | 4.5% | intergenic (‑5/–) | scrY_2/– | Sucrose porin/– |
| ? | Xen14_166 | 103 = | 3078 (1.180) | intergenic (–/–) | –/– | –/– | |||||
| * | ? | Xen14_138 | 1232 = | 96 (0.730) | 83 (0.170) +GT |
51/292 | 2.7 | 11.3% | intergenic (‑5/–) | scrY_2/– | Sucrose porin/– |
| ? | Xen14_143 | 808 = | 1221 (1.430) | intergenic (‑502/–) | Xen14_04759/– | hypothetical protein/– | |||||