miRNA: 3'- auCACAAGCUAUG--GCUcCAGC---------------AGCUG- -5'
miRNA: 3'- aUCacaAGCUAUGgcUCCAGCAGCUG- -5'
miRNA: 3'- aUCaCAAGCUaugGCUCCAgCAGCUg -5'
miRNA: 3'- aUCaCAa--GCUAUGGCU-------------CCAGCAGCUG- -5'
miRNA: 3'- -AUCACAAGCUAUGGCUCCAGCAGCUG- -5'
Results 1 - 5 of 5 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 | |||||||
| 30575 | 3' | -51.6 | NC_006548.1 | + | 37752 | 0.66 | 0.809309 |
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Target: 5'- -cGUGUUCGAUGCagCGAcGUCGauacauccacccgagUCGACg -3' miRNA: 3'- auCACAAGCUAUG--GCUcCAGC---------------AGCUG- -5' |
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| 30575 | 3' | -51.6 | NC_006548.1 | + | 19752 | 0.67 | 0.774419 |
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Target: 5'- gAGgcgUCGAUAC--GGGUUGUCGGCg -3' miRNA: 3'- aUCacaAGCUAUGgcUCCAGCAGCUG- -5' |
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| 30575 | 3' | -51.6 | NC_006548.1 | + | 32904 | 0.68 | 0.71985 |
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Target: 5'- cAGcGUUCGAauaCGAGGUgGUCGAg -3' miRNA: 3'- aUCaCAAGCUaugGCUCCAgCAGCUg -5' |
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| 30575 | 3' | -51.6 | NC_006548.1 | + | 1148 | 0.71 | 0.535569 |
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Target: 5'- gGGcGUcagCGAUGCUGAgcugcgccggcugGGUCGUCGACa -3' miRNA: 3'- aUCaCAa--GCUAUGGCU-------------CCAGCAGCUG- -5' |
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| 30575 | 3' | -51.6 | NC_006548.1 | + | 37653 | 1.08 | 0.001835 |
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Target: 5'- cUAGUGUUCGAUACCGAGGUCGUCGACu -3' miRNA: 3'- -AUCACAAGCUAUGGCUCCAGCAGCUG- -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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