Results 1 - 20 of 38 are showing below:
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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
12850 | 3' | -53.7 | NC_003387.1 | + | 40361 | 0.75 | 0.328149 |
Target: 5'- gCCGUGAUCGCGGCCggGGccaAGGgccUCGa -3' miRNA: 3'- -GGCGCUAGCGCCGGaaCUaa-UCC---AGC- -5' |
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12850 | 3' | -53.7 | NC_003387.1 | + | 34326 | 0.67 | 0.777688 |
Target: 5'- cCCGCGGccgacccgUCGCaGCCgaucgacgucgacgUGGUcgAGGUCGg -3' miRNA: 3'- -GGCGCU--------AGCGcCGGa-------------ACUAa-UCCAGC- -5' |
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12850 | 3' | -53.7 | NC_003387.1 | + | 39035 | 0.68 | 0.720648 |
Target: 5'- aCCGUGGUgGCGGCC-------GGUCGa -3' miRNA: 3'- -GGCGCUAgCGCCGGaacuaauCCAGC- -5' |
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12850 | 3' | -53.7 | NC_003387.1 | + | 14677 | 0.68 | 0.711011 |
Target: 5'- aCCGCGGcacgugggagUCGUGGCCgaaguuccUGGUgcgcGGGUCu -3' miRNA: 3'- -GGCGCU----------AGCGCCGGa-------ACUAa---UCCAGc -5' |
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12850 | 3' | -53.7 | NC_003387.1 | + | 23358 | 0.69 | 0.623507 |
Target: 5'- cCCGCGAgcaagUGaUGGCCgagcUGAUUcGGGUCGc -3' miRNA: 3'- -GGCGCUa----GC-GCCGGa---ACUAA-UCCAGC- -5' |
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12850 | 3' | -53.7 | NC_003387.1 | + | 24934 | 0.7 | 0.612497 |
Target: 5'- gCCGCGAcCGacggcgGGCCgccUGAUggccUGGGUCGg -3' miRNA: 3'- -GGCGCUaGCg-----CCGGa--ACUA----AUCCAGC- -5' |
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12850 | 3' | -53.7 | NC_003387.1 | + | 27248 | 0.66 | 0.803179 |
Target: 5'- gCGCGGUCgagGCGGCCcgGcAUgccuGGUCGc -3' miRNA: 3'- gGCGCUAG---CGCCGGaaC-UAau--CCAGC- -5' |
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12850 | 3' | -53.7 | NC_003387.1 | + | 10631 | 0.67 | 0.753248 |
Target: 5'- aCGCGAcCGCGGCggUGAa-GGGUaCGg -3' miRNA: 3'- gGCGCUaGCGCCGgaACUaaUCCA-GC- -5' |
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12850 | 3' | -53.7 | NC_003387.1 | + | 1592 | 0.68 | 0.700228 |
Target: 5'- -gGCGGUCGacaugucgcaCGGCCUggcGAUUucGGUCGg -3' miRNA: 3'- ggCGCUAGC----------GCCGGAa--CUAAu-CCAGC- -5' |
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12850 | 3' | -53.7 | NC_003387.1 | + | 40906 | 0.73 | 0.430477 |
Target: 5'- gCCGCGAUCGCGGUCgggcgguggccUGAUggacggcgagcuGGUCGc -3' miRNA: 3'- -GGCGCUAGCGCCGGa----------ACUAau----------CCAGC- -5' |
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12850 | 3' | -53.7 | NC_003387.1 | + | 6291 | 0.74 | 0.352808 |
Target: 5'- aCGCGAcCGUGGCCgugcUGAccgAGGUCGc -3' miRNA: 3'- gGCGCUaGCGCCGGa---ACUaa-UCCAGC- -5' |
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12850 | 3' | -53.7 | NC_003387.1 | + | 37806 | 0.74 | 0.382304 |
Target: 5'- cCCGCGGUCGCagcagcgcgcgaucgGGCCgagcg-AGGUCGg -3' miRNA: 3'- -GGCGCUAGCG---------------CCGGaacuaaUCCAGC- -5' |
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12850 | 3' | -53.7 | NC_003387.1 | + | 45218 | 0.67 | 0.732331 |
Target: 5'- cCCGCGGccgaUCGUGGCg-UGGUcGGaGUCGa -3' miRNA: 3'- -GGCGCU----AGCGCCGgaACUAaUC-CAGC- -5' |
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12850 | 3' | -53.7 | NC_003387.1 | + | 23428 | 0.66 | 0.81267 |
Target: 5'- cCCGCGGUCGCcggggaacagGGCgUcGAUgcGGGUUGc -3' miRNA: 3'- -GGCGCUAGCG----------CCGgAaCUAa-UCCAGC- -5' |
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12850 | 3' | -53.7 | NC_003387.1 | + | 49432 | 0.66 | 0.793508 |
Target: 5'- cCCGa-GUCgGCGGCCgUGucgGGGUCGu -3' miRNA: 3'- -GGCgcUAG-CGCCGGaACuaaUCCAGC- -5' |
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12850 | 3' | -53.7 | NC_003387.1 | + | 41105 | 0.68 | 0.711011 |
Target: 5'- gCgGCGGUCGCGGCCUucgUGAUgcc--CGa -3' miRNA: 3'- -GgCGCUAGCGCCGGA---ACUAauccaGC- -5' |
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12850 | 3' | -53.7 | NC_003387.1 | + | 46233 | 0.68 | 0.711011 |
Target: 5'- aCUGCcuUCGCGGCCc-GGUU-GGUCGc -3' miRNA: 3'- -GGCGcuAGCGCCGGaaCUAAuCCAGC- -5' |
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12850 | 3' | -53.7 | NC_003387.1 | + | 10936 | 0.68 | 0.711011 |
Target: 5'- gCGCcaGGUCGCGGCacgcgcccggCUUGAcgucgAGGUCGc -3' miRNA: 3'- gGCG--CUAGCGCCG----------GAACUaa---UCCAGC- -5' |
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12850 | 3' | -53.7 | NC_003387.1 | + | 6380 | 0.67 | 0.753248 |
Target: 5'- gCCGCGggCGaC-GCCUUGcgUGGG-CGg -3' miRNA: 3'- -GGCGCuaGC-GcCGGAACuaAUCCaGC- -5' |
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12850 | 3' | -53.7 | NC_003387.1 | + | 27632 | 0.66 | 0.793508 |
Target: 5'- cUCGaCGAUCGCGGCCUgcgUGuucacGUCa -3' miRNA: 3'- -GGC-GCUAGCGCCGGA---ACuaaucCAGc -5' |
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Note:
When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.
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