miRNA: 3'- -CCG--UUAGuu-CCGAAG--CAGUCGG-UUCG- -5'
miRNA: 3'- ccGUUAGUUCCGAagcAGUCGGUUCg -5'
miRNA: 3'- -CCGu--UAGUU-------------CCGAAGc---AGUCGGUUCg -5'
miRNA: 3'- cCGUUAgUUCCGAaGCAGUCGGuucg -5'
miRNA: 3'- -CCGUUAGUUCCGAAGCAGUCGGUUCG- -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 | |||||||
| 27725 | 5' | -50.3 | NC_005884.1 | + | 2905 | 0.67 | 0.859149 |
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Target: 5'- uGGCuaAAUUguuGGCUUCuaGUCAGCCuAAGUu -3' miRNA: 3'- -CCG--UUAGuu-CCGAAG--CAGUCGG-UUCG- -5' |
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| 27725 | 5' | -50.3 | NC_005884.1 | + | 41390 | 0.67 | 0.859149 |
|
Target: 5'- -uUAAUCAAGGCUaaaUCAGUCAAGg -3' miRNA: 3'- ccGUUAGUUCCGAagcAGUCGGUUCg -5' |
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| 27725 | 5' | -50.3 | NC_005884.1 | + | 43376 | 0.67 | 0.840222 |
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Target: 5'- gGGCuagGUCAGaggaugggacuucGGCUUCuaaaUCAGCCAGGg -3' miRNA: 3'- -CCGu--UAGUU-------------CCGAAGc---AGUCGGUUCg -5' |
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| 27725 | 5' | -50.3 | NC_005884.1 | + | 4061 | 0.68 | 0.781615 |
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Target: 5'- aGUAAUaAAGGCUgCGUCAGCCu--- -3' miRNA: 3'- cCGUUAgUUCCGAaGCAGUCGGuucg -5' |
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| 27725 | 5' | -50.3 | NC_005884.1 | + | 41092 | 1.15 | 0.000952 |
|
Target: 5'- cGGCAAUCAAGGCUUCGUCAGCCAAGCc -3' miRNA: 3'- -CCGUUAGUUCCGAAGCAGUCGGUUCG- -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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