miRNA: 3'- -CUcGGU--GGU-GGUGGUGUUGUUCgCAG- -5'
miRNA: 3'- -CUCGGUGGUGG-------UGGUG----UUgUUCG-CAG- -5'
miRNA: 3'- cUCGGugGUGGUGGuguuGuUCGCAG- -5'
miRNA: 3'- -CUCGGUGGUGGUGGUGUUGUUCGCAG- -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 | |||||||
| 22008 | 3' | -55 | NC_004915.1 | + | 4861 | 0.66 | 0.199218 |
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Target: 5'- uGAcCCAaaUCAuCCAUCACAACGAGgGUCu -3' miRNA: 3'- -CUcGGU--GGU-GGUGGUGUUGUUCgCAG- -5' |
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| 22008 | 3' | -55 | NC_004915.1 | + | 6450 | 0.66 | 0.19245 |
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Target: 5'- aGAGCCGCCACCaaggcugGCUACugugGAgGAGCuGUUc -3' miRNA: 3'- -CUCGGUGGUGG-------UGGUG----UUgUUCG-CAG- -5' |
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| 22008 | 3' | -55 | NC_004915.1 | + | 424 | 0.68 | 0.144771 |
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Target: 5'- aAGCUugCGCCGCCuuucCcGGCGUCa -3' miRNA: 3'- cUCGGugGUGGUGGuguuGuUCGCAG- -5' |
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| 22008 | 3' | -55 | NC_004915.1 | + | 2472 | 1.08 | 0.00006 |
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Target: 5'- gGAGCCACCACCACCACAACAAGCGUCc -3' miRNA: 3'- -CUCGGUGGUGGUGGUGUUGUUCGCAG- -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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