miRNA: 3'- -UCGCG--------UGCGaGGCGGg---GGGcgGUCCC- -5'
miRNA: 3'- uCGCGUGCGAGGcGGGGGGcGGUccc -5'
miRNA: 3'- -UCGCGUGCGAGg-----CGGGG-----------GgCGGUCCc -5'
miRNA: 3'- -UCGCgUGCGAGG--CGGGgGGCGGUCcc -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 | |||||||
| 29176 | 3' | -66.5 | NC_006150.1 | + | 125649 | 0.66 | 0.529162 |
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Target: 5'- aAGCGCgaaacgugGCGCgCCGCCaucuCCCuaCGGGGu -3' miRNA: 3'- -UCGCG--------UGCGaGGCGGg---GGGcgGUCCC- -5' |
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| 29176 | 3' | -66.5 | NC_006150.1 | + | 206388 | 0.66 | 0.538153 |
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Target: 5'- uGCGCGCGCUCC-UCCCCCaUCAa-- -3' miRNA: 3'- uCGCGUGCGAGGcGGGGGGcGGUccc -5' |
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| 29176 | 3' | -66.5 | NC_006150.1 | + | 1847 | 0.66 | 0.556285 |
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Target: 5'- cAGCGCGCGCUCgcgacgGCCCCaucaaaagcggCgGCUGGGa -3' miRNA: 3'- -UCGCGUGCGAGg-----CGGGG-----------GgCGGUCCc -5' |
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| 29176 | 3' | -66.5 | NC_006150.1 | + | 102349 | 0.66 | 0.57459 |
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Target: 5'- aGGCG-GCGCUUCggGCCCaCCGCCAGa- -3' miRNA: 3'- -UCGCgUGCGAGG--CGGGgGGCGGUCcc -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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