miRNA: 3'- gACuuCGACGGGGUC-----------UGGa--CUCGCGa -5'
miRNA: 3'- gACU--UCG-ACGGGGUCUgGACU---CG-CGa -5'
miRNA: 3'- -GACUUCGACGGGGUCUGGACUCGCGA- -5'
Results 1 - 3 of 3 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 | |||||||
| 17641 | 5' | -58.7 | NC_004466.2 | + | 34646 | 0.67 | 0.388948 |
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Target: 5'- gUGcuGCUGCCCUGGucuggugggauGCCaagGAGCGCa -3' miRNA: 3'- gACuuCGACGGGGUC-----------UGGa--CUCGCGa -5' |
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| 17641 | 5' | -58.7 | NC_004466.2 | + | 30312 | 0.67 | 0.379951 |
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Target: 5'- aUGAagAGCuUGCCCCGGAgCUGAccaGCaGCa -3' miRNA: 3'- gACU--UCG-ACGGGGUCUgGACU---CG-CGa -5' |
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| 17641 | 5' | -58.7 | NC_004466.2 | + | 16509 | 1.07 | 0.000415 |
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Target: 5'- cCUGAAGCUGCCCCAGACCUGAGCGCUu -3' miRNA: 3'- -GACUUCGACGGGGUCUGGACUCGCGA- -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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