miRNA: 3'- aGGUUG--GGUaaGUuu-CGGgUUCCAGC- -5'
miRNA: 3'- aGGUUG-GgUAAGUUu------CGGGUUC-CAGC- -5'
miRNA: 3'- aGGUUGGGUaaguUUCGGGUUCCAGC- -5'
miRNA: 3'- -AGGUUGGGUAAGUUUCGGGUUCCAGC- -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 | |||||||
| 31547 | 3' | -51 | NC_006820.1 | + | 24183 | 0.66 | 0.997315 |
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Target: 5'- gCCAACcgCCAggCAuucGCCgAGGGUCGc -3' miRNA: 3'- aGGUUG--GGUaaGUuu-CGGgUUCCAGC- -5' |
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| 31547 | 3' | -51 | NC_006820.1 | + | 136360 | 0.66 | 0.996277 |
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Target: 5'- aCCAGCaCgAUUCAGcacaucuGCCCAGGuGUUGa -3' miRNA: 3'- aGGUUG-GgUAAGUUu------CGGGUUC-CAGC- -5' |
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| 31547 | 3' | -51 | NC_006820.1 | + | 104175 | 0.68 | 0.986857 |
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Target: 5'- cUCAACCCAgc--AAGCUUGAGGUUGa -3' miRNA: 3'- aGGUUGGGUaaguUUCGGGUUCCAGC- -5' |
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| 31547 | 3' | -51 | NC_006820.1 | + | 164593 | 1.11 | 0.008121 |
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Target: 5'- uUCCAACCCAUUCAAAGCCCAAGGUCGg -3' miRNA: 3'- -AGGUUGGGUAAGUUUCGGGUUCCAGC- -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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