miRNA: 3'- -CUUGUUA--UUGg--GCuaCGCGAAG-UGGC- -5'
miRNA: 3'- -CUUGUUAuUGGGCua-CGCGaa--GUGGC- -5'
miRNA: 3'- cUUGUuaUUGG-GCUaCGCGaAGUGGC- -5'
miRNA: 3'- -CUUGUUAUUGGGCUACGCGAAGUGGC- -5'
Results 1 - 4 of 4 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 | |||||||
| 3472 | 3' | -49.1 | NC_001609.1 | + | 6194 | 0.67 | 0.565674 |
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Target: 5'- aGGACAAUcuGACaggCGggGUGCUUCuGCCGg -3' miRNA: 3'- -CUUGUUA--UUGg--GCuaCGCGAAG-UGGC- -5' |
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| 3472 | 3' | -49.1 | NC_001609.1 | + | 5127 | 0.67 | 0.552966 |
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Target: 5'- uGAAUAAUcACCCGucgGCGUgacaCGCCGc -3' miRNA: 3'- -CUUGUUAuUGGGCua-CGCGaa--GUGGC- -5' |
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| 3472 | 3' | -49.1 | NC_001609.1 | + | 5911 | 0.68 | 0.490947 |
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Target: 5'- uGGCAucGACCgCGA-GCGCcUCGCCGu -3' miRNA: 3'- cUUGUuaUUGG-GCUaCGCGaAGUGGC- -5' |
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| 3472 | 3' | -49.1 | NC_001609.1 | + | 5204 | 1.1 | 0.000447 |
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Target: 5'- uGAACAAUAACCCGAUGCGCUUCACCGa -3' miRNA: 3'- -CUUGUUAUUGGGCUACGCGAAGUGGC- -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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