miRNA: 3'- -CGCCGUUGUU-------GuuGCUgGUGACGCGa -5'
miRNA: 3'- -CGCCGUUGUuGUug-C-UGGUGACGCGa -5'
miRNA: 3'- -CGCCGUUGU--UGUUGCUGGugAcgcga -5'
miRNA: 3'- cGCCGu--UGUUGUUgCUGGUGACG---CGA- -5'
miRNA: 3'- -CGCCGUUGUUGUUGCUGGUGACGCGA- -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 | |||||||
| 6094 | 5' | -53.1 | NC_001824.1 | + | 87194 | 0.68 | 0.862179 |
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Target: 5'- cGCGGCAACAGugguuggUggUGAaCACUGUGUa -3' miRNA: 3'- -CGCCGUUGUU-------GuuGCUgGUGACGCGa -5' |
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| 6094 | 5' | -53.1 | NC_001824.1 | + | 57273 | 0.69 | 0.829399 |
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Target: 5'- uGUGGCAAUAcCAguaGuACCAUUGCGCg -3' miRNA: 3'- -CGCCGUUGUuGUug-C-UGGUGACGCGa -5' |
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| 6094 | 5' | -53.1 | NC_001824.1 | + | 79298 | 0.69 | 0.82049 |
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Target: 5'- uGCGGCAACAuaACAAUGACCugUu---- -3' miRNA: 3'- -CGCCGUUGU--UGUUGCUGGugAcgcga -5' |
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| 6094 | 5' | -53.1 | NC_001824.1 | + | 80342 | 0.73 | 0.605471 |
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Target: 5'- cUGGCuuuACAGCGGgGACCGCUGUaaaGCUa -3' miRNA: 3'- cGCCGu--UGUUGUUgCUGGUGACG---CGA- -5' |
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| 6094 | 5' | -53.1 | NC_001824.1 | + | 87299 | 1.1 | 0.002944 |
|
Target: 5'- cGCGGCAACAACAACGACCACUGCGCUu -3' miRNA: 3'- -CGCCGUUGUUGUUGCUGGUGACGCGA- -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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