miRNA: 3'- cACGGGAagCAGUUGUCCUguugaGG- -5'
miRNA: 3'- -CACGGGa------AGCA----GUUGUCCUGU---------------UGAGG- -5'
miRNA: 3'- -CACGGGAAGCAGU-UGUCCUG----------UUGa--GG- -5'
miRNA: 3'- -CACGGGAAGCAGUUGUCCUGUUGAGG- -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 | |||||||
| 4284 | 5' | -51.7 | NC_001710.1 | + | 6100 | 0.67 | 0.31848 |
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Target: 5'- uUGCCCUg-GUCAACAGGGag---CCu -3' miRNA: 3'- cACGGGAagCAGUUGUCCUguugaGG- -5' |
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| 4284 | 5' | -51.7 | NC_001710.1 | + | 3896 | 0.7 | 0.192831 |
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Target: 5'- uGUGCCCcauguuaUCGUacucCAACGGGACGcgagugcucuuucccGCUCCc -3' miRNA: 3'- -CACGGGa------AGCA----GUUGUCCUGU---------------UGAGG- -5' |
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| 4284 | 5' | -51.7 | NC_001710.1 | + | 3680 | 0.81 | 0.031294 |
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Target: 5'- cGUGCCCUUCGUCAcAUAGGACcggugagccaGACgagCCa -3' miRNA: 3'- -CACGGGAAGCAGU-UGUCCUG----------UUGa--GG- -5' |
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| 4284 | 5' | -51.7 | NC_001710.1 | + | 1741 | 1.11 | 0.000129 |
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Target: 5'- uGUGCCCUUCGUCAACAGGACAACUCCc -3' miRNA: 3'- -CACGGGAAGCAGUUGUCCUGUUGAGG- -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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