miRNA: 3'- uaugACUACG-CGUCG--CGGCGGUcGCG- -5'
miRNA: 3'- -UAUGACUACG--------CGUCgCG-GCGGUC-------GCG- -5'
miRNA: 3'- uaUGACUAcGCGUCG----CGGCg-------GUCGCG- -5'
miRNA: 3'- -UAUGaCUACGC-GUCGCG-----GCGGuCGCG- -5'
Results 21 - 24 of 24 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 | |||||||
| 2329 | 5' | -58.8 | NC_001416.1 | + | 14764 | 0.66 | 0.420669 |
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Target: 5'- ---aUGGUGCaGCAGCucGCCGUCGcCGCa -3' miRNA: 3'- uaugACUACG-CGUCG--CGGCGGUcGCG- -5' |
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| 2329 | 5' | -58.8 | NC_001416.1 | + | 10377 | 0.66 | 0.448739 |
|
Target: 5'- uGUGCUGAUGCagaaagcgGCAGgGCuUGCCGGaggugucCGCu -3' miRNA: 3'- -UAUGACUACG--------CGUCgCG-GCGGUC-------GCG- -5' |
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| 2329 | 5' | -58.8 | NC_001416.1 | + | 16468 | 0.66 | 0.459655 |
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Target: 5'- -gACUGGU-CGCAGUacugGCCGaugacauaCAGCGCc -3' miRNA: 3'- uaUGACUAcGCGUCG----CGGCg-------GUCGCG- -5' |
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| 2329 | 5' | -58.8 | NC_001416.1 | + | 46078 | 0.66 | 0.459655 |
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Target: 5'- cAUGCaGAUGCGuCAGCGUgauguUGCU-GCGCu -3' miRNA: 3'- -UAUGaCUACGC-GUCGCG-----GCGGuCGCG- -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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