mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| RA | 44,301 | (T)9→8 | intergenic (+132/‑359) | oprD_1 → / → czcR_2 | Porin D/Transcriptional activator protein CzcR |
| RA | 120,983 | (T)9→8 | intergenic (+280/+92) | polA → / ← engB | DNA polymerase I/putative GTP‑binding protein EngB |
| RA | 179,484 | T→C | C316R (TGC→CGC) | CJ019_00182 → | hypothetical protein |
| JC | 4,257,335 | +GCGGCCGC | intergenic (‑281/+7) | CJ019_03991 ← / ← CJ019_03994 | putative ABC transporter ATP‑binding protein/hypothetical protein |
| RA | 4,759,509 | G→A | intergenic (+124/‑16) | fpvA_3 → / → ligM_KToptimized | Ferripyoverdine receptor/sequence generated by OPTIMIZER for KT2440 |
| RA | 5,386,500 | C→A | intergenic (‑509/+1142) | CJ019_05070 ← / ← nptII | hypothetical protein/neomycin phosphotransferase |
| RA | 5,386,503 | C→G | intergenic (‑512/+1139) | CJ019_05070 ← / ← nptII | hypothetical protein/neomycin phosphotransferase |
| RA | 5,386,506 | 1 bp→GT | intergenic (‑515/+1136) | CJ019_05070 ← / ← nptII | hypothetical protein/neomycin phosphotransferase |
| RA | 5,386,507 | +C | intergenic (‑516/+1135) | CJ019_05070 ← / ← nptII | hypothetical protein/neomycin phosphotransferase |
| RA | 5,386,510 | 2 bp→TA | intergenic (‑519/+1131) | CJ019_05070 ← / ← nptII | hypothetical protein/neomycin phosphotransferase |
| RA | 5,386,513 | +AA | intergenic (‑522/+1129) | CJ019_05070 ← / ← nptII | hypothetical protein/neomycin phosphotransferase |
| RA | 5,386,514 | T→C | intergenic (‑523/+1128) | CJ019_05070 ← / ← nptII | hypothetical protein/neomycin phosphotransferase |
| RA | 5,386,517 | G→C | intergenic (‑526/+1125) | CJ019_05070 ← / ← nptII | hypothetical protein/neomycin phosphotransferase |
| RA | 5,386,519 | G→A | intergenic (‑528/+1123) | CJ019_05070 ← / ← nptII | hypothetical protein/neomycin phosphotransferase |
| RA | 5,386,811 | C→T | intergenic (‑820/+831) | CJ019_05070 ← / ← nptII | hypothetical protein/neomycin phosphotransferase |
| MC JC | 5,390,395 | (CGCAT)2→1 | coding (489‑493/1666 nt) | ligH → | 10‑formyltetrahydrofolate synthetase |
| RA | 5,760,598 | (A)6→5 | coding (781/834 nt) | CJ019_05400 → | hypothetical protein |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | ACB143 | 82143 | 82330 | 188 | 22 [20] | [21] 22 | trpA | Tryptophan synthase alpha chain |
| * | * | ÷ | ACB143 | 517190 | 517305 | 116 | 25 [19] | [21] 22 | tyrS/birA | Tyrosine‑‑tRNA ligase/Bifunctional ligase/repressor BirA |
| * | * | ÷ | ACB143 | 1119622 | 1119715 | 94 | 23 [20] | [19] 45 | tdcG_2/gcvP_1 | L‑serine dehydratase TdcG/Glycine dehydrogenase (decarboxylating) |
| * | * | ÷ | ACB143 | 1149358 | 1149523 | 166 | 22 [20] | [21] 22 | sasA_4/yihS | Adaptive‑response sensory‑kinase SasA/Sulfoquinovose isomerase |
| * | * | ÷ | ACB143 | 1914560 | 1914685 | 126 | 26 [17] | [21] 22 | [ppsC_1]–[CJ019_01830] | [ppsC_1],[CJ019_01830] |
| * | * | ÷ | ACB143 | 1923406 | 1923538 | 133 | 23 [21] | [21] 23 | [apeB] | [apeB] |
| * | * | ÷ | ACB143 | 2467190 | 2467208 | 19 | 30 [0] | [13] 31 | CJ019_02325/tal | hypothetical protein/Transaldolase |
| * | * | ÷ | ACB143 | 3046173 | 3046335 | 163 | 25 [19] | [20] 22 | [rcsC_5]–[degU_2] | [rcsC_5],[degU_2] |
| * | * | ÷ | ACB143 | 3769361 | 3769474 | 114 | 22 [18] | [21] 23 | CJ019_03581/CJ019_03582 | hypothetical protein/hypothetical protein |
| * | * | ÷ | ACB143 | 3944683 | 3944797 | 115 | 22 [20] | [21] 22 | CJ019_03729/CJ019_03730 | hypothetical protein/hypothetical protein |
| * | * | ÷ | ACB143 | 4163732 | 4163875 | 144 | 24 [20] | [20] 23 | katG/leuO_2 | Catalase‑peroxidase/HTH‑type transcriptional regulator LeuO |
| * | * | ÷ | ACB143 | 4344757 | 4344833 | 77 | 22 [6] | [21] 22 | nmoA | Nitronate monooxygenase |
| * | * | ÷ | ACB143 | 4666863 | 4666996 | 134 | 22 [21] | [21] 24 | [btuB_4] | [btuB_4] |
| * | * | ÷ | ACB143 | 4732375 | 4732518 | 144 | 23 [20] | [21] 22 | [CJ019_04468] | [CJ019_04468] |
| * | * | ÷ | ACB143 | 4801226 | 4801676 | 451 | 23 [20] | [17] 27 | CJ019_04509/dsbD_2 | hypothetical protein/Thiol:disulfide interchange protein DsbD |
| * | * | ÷ | ACB143 | 4845672 | 4845863 | 192 | 27 [21] | [19] 22 | recR/ybaB | Recombination protein RecR/Nucleoid‑associated protein YbaB |
| * | * | ÷ | ACB143 | 4944218 | 4944358 | 141 | 22 [18] | [21] 26 | [CJ019_04642] | [CJ019_04642] |
| * | * | ÷ | ACB143 | 5192928 | 5193029 | 102 | 22 [17] | [21] 22 | [gltR_4]–[CJ019_04888] | [gltR_4],[CJ019_04888] |
| * | * | ÷ | ACB143 | 5981569 | 5981687 | 119 | 22 [21] | [19] 24 | [sasA_19]–[ycaC_2] | [sasA_19],[ycaC_2] |
| * | * | ÷ | ACB143 | 6003716 | 6003783 | 68 | 23 [19] | [21] 22 | [CJ019_05617] | [CJ019_05617] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | ACB143 | 2155685 = | 59 (0.960) | 52 (0.850) | 39/260 | 0.2 | 46.9% | coding (301/369 nt) | tmk_1 | Thymidylate kinase |
| ? | ACB143 | = 2220562 | 59 (0.960) | coding (36/369 nt) | tmk_2 | Thymidylate kinase | |||||
| * | ? | ACB143 | 2191046 = | 0 (0.000) | 107 (1.990) +TAAGAGATATTTTCAG |
49/228 | 0.0 | 100% | intergenic (‑1/‑313) | PP_RS10045/purU_3 | LysR family transcriptional regulator/Formyltetrahydrofolate deformylase |
| ? | ACB143 | = 2191046 | NA (NA) | intergenic (‑1/‑313) | PP_RS10045/purU_3 | LysR family transcriptional regulator/Formyltetrahydrofolate deformylase | |||||