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 |
| RA | 690,144 | A→G | intergenic (+21/‑2438) | bauC → / → PP_RS08750 | Putative 3‑oxopropanoate dehydrogenase/tRNA‑Val |
| RA | 690,150 | T→G | intergenic (+27/‑2432) | bauC → / → PP_RS08750 | Putative 3‑oxopropanoate dehydrogenase/tRNA‑Val |
| JC | 4,257,335 | +GCGGCCGC | intergenic (‑281/+7) | CJ019_03991 ← / ← CJ019_03994 | putative ABC transporter ATP‑binding protein/hypothetical protein |
| RA | 4,759,606 | G→A | A28T (GCC→ACC) | ligM_KToptimized → | 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 |
| JC | 5,391,707 | +54 bp | intergenic (+124/‑1253) | ligH → / → CJ019_05072 | 10‑formyltetrahydrofolate synthetase/hypothetical protein |
| 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 | 87943 | 88062 | 120 | 33 [28] | [28] 32 | [CJ019_00094]–[CJ019_00095] | [CJ019_00094],[CJ019_00095] |
| * | * | ÷ | ACB143 | 674230 | 674396 | 167 | 33 [29] | [29] 31 | [nimR_1]–[mcpH_2] | [nimR_1],[mcpH_2] |
| * | * | ÷ | ACB143 | 1402143 | 1402216 | 74 | 30 [29] | [29] 30 | ydgA/nadA | Protein YdgA/Quinolinate synthase A |
| * | * | ÷ | ACB143 | 1585586 | 1585721 | 136 | 30 [28] | [29] 31 | CJ019_01493 | hypothetical protein |
| * | * | ÷ | ACB143 | 2234268 | 2234404 | 137 | 30 [28] | [29] 30 | [gltX] | [gltX] |
| * | * | ÷ | ACB143 | 3046183 | 3046346 | 164 | 30 [28] | [29] 30 | [rcsC_5]–[degU_2] | [rcsC_5],[degU_2] |
| * | * | ÷ | ACB143 | 4163741 | 4163876 | 136 | 31 [28] | [24] 30 | katG/leuO_2 | Catalase‑peroxidase/HTH‑type transcriptional regulator LeuO |
| * | * | ÷ | ACB143 | 4344726 | 4344825 | 100 | 30 [29] | [29] 30 | nmoA | Nitronate monooxygenase |
| * | * | ÷ | ACB143 | 4732381 | 4732492 | 112 | 30 [29] | [29] 30 | [CJ019_04468] | [CJ019_04468] |
| * | * | ÷ | ACB143 | 4845708 | 4845828 | 121 | 30 [27] | [28] 30 | recR/ybaB | Recombination protein RecR/Nucleoid‑associated protein YbaB |
| * | * | ÷ | ACB143 | 4944211 | 4944344 | 134 | 30 [28] | [29] 30 | [CJ019_04642] | [CJ019_04642] |
| * | * | ÷ | ACB143 | 5250119 | 5250228 | 110 | 30 [29] | [28] 37 | [CJ019_04947]–[CJ019_04948] | [CJ019_04947],[CJ019_04948] |
| * | * | ÷ | ACB143 | 5900292 | 5900411 | 120 | 30 [29] | [27] 32 | [CJ019_05521] | [CJ019_05521] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | ACB143 | 1837190 = | 1 (0.010) | 69 (0.910) | 39/250 | 0.5 | 53.5% | coding (660/2754 nt) | barA | Signal transduction histidine‑protein kinaseBarA |
| ? | ACB143 | = 2172433 | 119 (1.570) | intergenic (+175/+93) | CJ019_02060/CJ019_02061 | IS1182 family transposase ISPpu16/hypothetical protein | |||||
| * | ? | ACB143 | = 1837193 | 1 (0.010) | 41 (0.540) | 31/252 | 1.0 | 51.3% | coding (657/2754 nt) | barA | Signal transduction histidine‑protein kinaseBarA |
| ? | ACB143 | 2170759 = | 77 (1.010) | intergenic (‑774/‑63) | arsR1/CJ019_02060 | Arsenic resistance transcriptional regulatorArsR1/IS1182 family transposase ISPpu16 | |||||
| * | ? | ACB143 | 2155685 = | 63 (0.800) | 76 (0.960) | 42/260 | 0.4 | 50.2% | coding (301/369 nt) | tmk_1 | Thymidylate kinase |
| ? | ACB143 | = 2220562 | 88 (1.120) | coding (36/369 nt) | tmk_2 | Thymidylate kinase | |||||
| * | ? | ACB143 | 2191046 = | 0 (0.000) | 191 (2.760) +TAAGAGATATTTTCAG |
70/228 | 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 | |||||