miRNA: 3'- aGCGG-ACA-UUCAGGaGGCGGcGUGCg -5'
miRNA: 3'- aGCGGAC-AUUCAG-GAGgc-GGCGUGCG- -5'
miRNA: 3'- aGCGGAC------AUUCAG----------GAGGCGGCGUgCG- -5'
miRNA: 3'- -AGCGGACAUUCAGGAGGCGGCGUGCG- -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 | |||||||
| 21050 | 5' | -57.4 | NC_004745.1 | + | 9694 | 0.66 | 0.463806 |
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Target: 5'- aCGCCgUGUcGAGUUCaCCGCC-CACGg -3' miRNA: 3'- aGCGG-ACA-UUCAGGaGGCGGcGUGCg -5' |
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| 21050 | 5' | -57.4 | NC_004745.1 | + | 26820 | 0.66 | 0.433613 |
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Target: 5'- aCGCCUGcUGAGUUgCUCaacCUGCGCGUu -3' miRNA: 3'- aGCGGAC-AUUCAG-GAGgc-GGCGUGCG- -5' |
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| 21050 | 5' | -57.4 | NC_004745.1 | + | 703 | 0.66 | 0.423805 |
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Target: 5'- cUGCCUGgcugaaUGAGUCggccacgcugUUCCGCCGCAaGUa -3' miRNA: 3'- aGCGGAC------AUUCAG----------GAGGCGGCGUgCG- -5' |
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| 21050 | 5' | -57.4 | NC_004745.1 | + | 19004 | 1.12 | 0.00019 |
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Target: 5'- uUCGCCUGUAAGUCCUCCGCCGCACGCu -3' miRNA: 3'- -AGCGGACAUUCAGGAGGCGGCGUGCG- -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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