miRNA: 3'- gACACCG---UGGCGGA--UGCCGCGG--GGGu -5'
miRNA: 3'- gacaCCGu-GGCGGAUgCCGCGGGGGU- -5'
miRNA: 3'- gACACC---------GUGGCGga---UGCCGCGGGGGU- -5'
miRNA: 3'- gacACCGUGGCG-GAUGCCgCGGGGgu -5'
miRNA: 3'- -GACACCGUGGCGGAUGCCGCGGGGGU- -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 | |||||||
| 5026 | 3' | -63.6 | NC_001734.1 | + | 26963 | 0.66 | 0.177838 |
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Target: 5'- uUGUGGUgccACUGCUUcaAUGGCGCCauCCCu -3' miRNA: 3'- gACACCG---UGGCGGA--UGCCGCGG--GGGu -5' |
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| 5026 | 3' | -63.6 | NC_001734.1 | + | 17101 | 0.67 | 0.15959 |
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Target: 5'- ---gGGCcuCUGUCUAgGGUGCCCCUAa -3' miRNA: 3'- gacaCCGu-GGCGGAUgCCGCGGGGGU- -5' |
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| 5026 | 3' | -63.6 | NC_001734.1 | + | 27299 | 0.68 | 0.147031 |
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Target: 5'- uUGUGGacuaaacagUAUUGCacaugACGGUGCCCCCAa -3' miRNA: 3'- gACACC---------GUGGCGga---UGCCGCGGGGGU- -5' |
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| 5026 | 3' | -63.6 | NC_001734.1 | + | 15979 | 0.71 | 0.079368 |
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Target: 5'- --uUGGCACCGCgCUACGG-GUCCCa- -3' miRNA: 3'- gacACCGUGGCG-GAUGCCgCGGGGgu -5' |
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| 5026 | 3' | -63.6 | NC_001734.1 | + | 21461 | 1.08 | 8.1e-05 |
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Target: 5'- cCUGUGGCACCGCCUACGGCGCCCCCAa -3' miRNA: 3'- -GACACCGUGGCGGAUGCCGCGGGGGU- -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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