miRNA: 3'- cGCUCAACCUcGGUCGUGG-UUGCAug -5'
miRNA: 3'- -CGCUcaACCUCGGUCGUGGu-----UGCa--UG- -5'
miRNA: 3'- cgCUCAa----CCUC-GGUCG---UGGUUGCAUG- -5'
miRNA: 3'- -CGCUCAACCUCGGUCGUGGUUGCAUG- -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 | |||||||
| 6007 | 5' | -53.3 | NC_001809.1 | + | 775 | 0.69 | 0.202643 |
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Target: 5'- aUGGGUUGGGaUCAGCACCgAGCGUc- -3' miRNA: 3'- cGCUCAACCUcGGUCGUGG-UUGCAug -5' |
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| 6007 | 5' | -53.3 | NC_001809.1 | + | 8232 | 0.73 | 0.097486 |
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Target: 5'- gGCGGuaUGGAGCCAGCACCuugaacACGcagGCc -3' miRNA: 3'- -CGCUcaACCUCGGUCGUGGu-----UGCa--UG- -5' |
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| 6007 | 5' | -53.3 | NC_001809.1 | + | 6743 | 0.75 | 0.067821 |
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Target: 5'- -aGAGUagcagGGAGgCCAGCaagACCAGCGUGCc -3' miRNA: 3'- cgCUCAa----CCUC-GGUCG---UGGUUGCAUG- -5' |
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| 6007 | 5' | -53.3 | NC_001809.1 | + | 5295 | 1.12 | 0.000085 |
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Target: 5'- cGCGAGUUGGAGCCAGCACCAACGUACu -3' miRNA: 3'- -CGCUCAACCUCGGUCGUGGUUGCAUG- -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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