miRNA: 3'- gAGGGAGUUGAGaAAUCGG----UUU-GCGA- -5'
miRNA: 3'- gAGGGAGUUGAGAaAUCG-GU---------UugCGa -5'
miRNA: 3'- gaGGgAGUUGAGaaaUCGGUUUGCGA- -5'
miRNA: 3'- gaGGGAGUUG-AGAAau---------CGGUUUGCGA- -5'
miRNA: 3'- -GAGGGAGUUGAGAAAUCGGUUUGCGA- -5'
Results 1 - 5 of 5 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# |
P value
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| Predicted miRNA align pattern | |||||||
| 23547 | 5' | -49.4 | NC_005260.1 | + | 19476 | 0.68 | 0.995698 |
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Target: 5'- uUCCUUCAACUCaUUAGCUcuuuGAAuUGCUg -3' miRNA: 3'- gAGGGAGUUGAGaAAUCGG----UUU-GCGA- -5' |
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| 23547 | 5' | -49.4 | NC_005260.1 | + | 111274 | 0.69 | 0.994175 |
|
Target: 5'- aUUCCUCAACUCUcUAGCaCAagaguccagGugGCa -3' miRNA: 3'- gAGGGAGUUGAGAaAUCG-GU---------UugCGa -5' |
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| 23547 | 5' | -49.4 | NC_005260.1 | + | 187726 | 0.7 | 0.983312 |
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Target: 5'- -gCUaUCAACUCag-AGCCAAACGCUu -3' miRNA: 3'- gaGGgAGUUGAGaaaUCGGUUUGCGA- -5' |
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| 23547 | 5' | -49.4 | NC_005260.1 | + | 207954 | 0.77 | 0.812982 |
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Target: 5'- -aCCCUCAGCuUCUUggaucauuucuGCCAGACGCUc -3' miRNA: 3'- gaGGGAGUUG-AGAAau---------CGGUUUGCGA- -5' |
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| 23547 | 5' | -49.4 | NC_005260.1 | + | 187505 | 1.08 | 0.020377 |
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Target: 5'- uCUCCCUCAACUCUUUAGCCAAACGCUc -3' miRNA: 3'- -GAGGGAGUUGAGAAAUCGGUUUGCGA- -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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