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 | 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 |
| 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 | 87998 | 88062 | 65 | 16 [15] | [14] 17 | [CJ019_00094]–[CJ019_00095] | [CJ019_00094],[CJ019_00095] |
| * | * | ÷ | ACB143 | 346098 | 346232 | 135 | 16 [14] | [13] 16 | [btuD_1] | [btuD_1] |
| * | * | ÷ | ACB143 | 438087 | 438207 | 121 | 16 [15] | [12] 16 | CJ019_00396/dmdC_1 | hypothetical protein/3‑methylmercaptopropionyl‑CoA dehydrogenase |
| * | * | ÷ | ACB143 | 674267 | 674396 | 130 | 16 [15] | [14] 16 | [nimR_1]–[mcpH_2] | [nimR_1],[mcpH_2] |
| * | * | ÷ | ACB143 | 1396586 | 1396700 | 115 | 16 [15] | [15] 16 | [CJ019_01313]–[mcpU_1] | [CJ019_01313],[mcpU_1] |
| * | * | ÷ | ACB143 | 1492461 | 1492606 | 146 | 18 [14] | [15] 17 | [CJ019_01406] | [CJ019_01406] |
| * | * | ÷ | ACB143 | 1585631 | 1585711 | 81 | 19 [14] | [15] 16 | CJ019_01493 | hypothetical protein |
| * | * | ÷ | ACB143 | 1773084 | 1773194 | 111 | 17 [14] | [15] 16 | [nhaK] | [nhaK] |
| * | * | ÷ | ACB143 | 1923408 | 1923505 | 98 | 16 [13] | [14] 18 | [apeB] | [apeB] |
| * | * | ÷ | ACB143 | 2288826 | 2288915 | 90 | 17 [15] | [15] 16 | CJ019_02171/CJ019_02172 | hypothetical protein/hypothetical protein |
| * | * | ÷ | ACB143 | 3459841 | 3459959 | 119 | 16 [13] | [15] 17 | [CJ019_03284] | [CJ019_03284] |
| * | * | ÷ | ACB143 | 3769372 | 3769469 | 98 | 17 [15] | [15] 16 | CJ019_03581/CJ019_03582 | hypothetical protein/hypothetical protein |
| * | * | ÷ | ACB143 | 4344747 | 4344818 | 72 | 16 [15] | [15] 17 | nmoA | Nitronate monooxygenase |
| * | * | ÷ | ACB143 | 4521566 | 4521681 | 116 | 16 [14] | [15] 16 | [CJ019_04289] | [CJ019_04289] |
| * | * | ÷ | ACB143 | 4732384 | 4732469 | 86 | 16 [15] | [14] 17 | gltA/CJ019_04468 | Citrate synthase/hypothetical protein |
| * | * | ÷ | ACB143 | 4801167 | 4801544 | 378 | 16 [15] | [15] 16 | CJ019_04509/dsbD_2 | hypothetical protein/Thiol:disulfide interchange protein DsbD |
| * | * | ÷ | ACB143 | 4838444 | 4838559 | 116 | 16 [15] | [15] 16 | CJ019_04536/copA_3 | hypothetical protein/putative copper‑importing P‑type ATPase A |
| * | * | ÷ | ACB143 | 4845710 | 4845881 | 172 | 16 [13] | [15] 16 | recR/ybaB | Recombination protein RecR/Nucleoid‑associated protein YbaB |
| * | * | ÷ | ACB143 | 4944211 | 4944339 | 129 | 16 [14] | [13] 18 | [CJ019_04642] | [CJ019_04642] |
| * | * | ÷ | ACB143 | 5192914 | 5193042 | 129 | 16 [15] | [13] 17 | [gltR_4]–[CJ019_04888] | [gltR_4],[CJ019_04888] |
| * | * | ÷ | ACB143 | 5250092 | 5250222 | 131 | 26 [15] | [15] 20 | [CJ019_04947]–[CJ019_04948] | [CJ019_04947],[CJ019_04948] |
| * | * | ÷ | ACB143 | 5503659 | 5503810 | 152 | 16 [15] | [15] 18 | [CJ019_05176] | [CJ019_05176] |
| * | * | ÷ | ACB143 | 5900328 | 5900398 | 71 | 17 [15] | [13] 16 | [CJ019_05521] | [CJ019_05521] |
| * | * | ÷ | ACB143 | 5981587 | 5981692 | 106 | 17 [13] | [13] 19 | [sasA_19]–[ycaC_2] | [sasA_19],[ycaC_2] |
| * | * | ÷ | ACB143 | 6011017 | 6011100 | 84 | 17 [15] | [15] 17 | [CJ019_05623] | [CJ019_05623] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | ACB143 | 1433054 = | NA (NA) | 22 (0.470) | 18/250 | 1.3 | 95.8% | intergenic (‑331/‑328) | yveA/CJ019_01212 | Aspartate‑proton symporter/IS110 family transposase ISPpu9 |
| ? | ACB143 | = 1837507 | 1 (0.020) | coding (343/2754 nt) | barA | Signal transduction histidine‑protein kinaseBarA | |||||
| * | ? | ACB143 | 1837505 = | 1 (0.020) | 23 (0.480) | 20/254 | 1.1 | 95.9% | coding (345/2754 nt) | barA | Signal transduction histidine‑protein kinaseBarA |
| ? | ACB143 | 2930729 = | NA (NA) | intergenic (+46/+37) | nanT_2/CJ019_02768 | Sialic acid transporter NanT/IS110 family transposase ISPpu9 | |||||
| * | ? | ACB143 | 2191046 = | 1 (0.020) | 47 (1.100) +TAAGAGATATTTTCAG |
31/228 | 0.2 | 98.2% | 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 | |||||
| * | ? | ACB143 | 3359593 = | 41 (0.840) | 39 (0.800) | 28/258 | 0.5 | 64.6% | intergenic (+219/‑151) | pikAII_1/CJ019_03160 | Narbonolide/10‑deoxymethynolide synthase PikA2,modules 3 and 4/Tn3 family transposase ISPa42 |
| ? | ACB143 | 5371600 = | 2 (0.040) | intergenic (‑58/‑135) | grpE/recN | Protein GrpE/DNA repair protein RecN | |||||
| * | ? | ACB143 | = 3376608 | 47 (0.960) | 33 (0.710) | 25/246 | 0.6 | 59.8% | coding (498/546 nt) | CJ019_03184 | hypothetical protein |
| ? | ACB143 | = 5371601 | 0 (0.000) | intergenic (‑59/‑134) | grpE/recN | Protein GrpE/DNA repair protein RecN | |||||