miRNA: 3'- -CCGC--CCGCCG---UCGCCACU-GCCGAGGu -5'
miRNA: 3'- -CCGCCCGCCG--------UCGCCACUgCCGa--GGU- -5'
miRNA: 3'- -CCGCC-CG-CCGuCGCCa-CUGCCGAGGU- -5'
miRNA: 3'- -CCGC--CCGCCGUCGCCACUGCCGaGGu -5'
miRNA: 3'- -CCGCCCGCCGUCGCCACUGCCGAGGU- -5'
Results 21 - 25 of 25 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 | |||||||
| 19668 | 3' | -64 | NC_004686.1 | + | 19421 | 0.72 | 0.123486 |
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Target: 5'- gGGUGguGGCGGUaauGGUGGUGAcCGGUUCCu -3' miRNA: 3'- -CCGC--CCGCCG---UCGCCACU-GCCGAGGu -5' |
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| 19668 | 3' | -64 | NC_004686.1 | + | 2751 | 0.72 | 0.108163 |
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Target: 5'- uGGUGGGUGGUguggucacAGCGGUGAgGGUcgcCCAa -3' miRNA: 3'- -CCGCCCGCCG--------UCGCCACUgCCGa--GGU- -5' |
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| 19668 | 3' | -64 | NC_004686.1 | + | 21836 | 0.78 | 0.042939 |
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Target: 5'- cGGCGGcGCgGGC-GCGGgcGGCGGCUCCGg -3' miRNA: 3'- -CCGCC-CG-CCGuCGCCa-CUGCCGAGGU- -5' |
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| 19668 | 3' | -64 | NC_004686.1 | + | 21893 | 0.81 | 0.023326 |
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Target: 5'- cGGCGgcGGCGGUGGCGGUGGCGGUgCCu -3' miRNA: 3'- -CCGC--CCGCCGUCGCCACUGCCGaGGu -5' |
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| 19668 | 3' | -64 | NC_004686.1 | + | 22356 | 1.1 | 0.000139 |
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Target: 5'- cGGCGGGCGGCAGCGGUGACGGCUCCAa -3' miRNA: 3'- -CCGCCCGCCGUCGCCACUGCCGAGGU- -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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