miRNA: 3'- -AGUAGUAG--GGUGUGCACAaaaUGUaa -5'
miRNA: 3'- -AGUaGUAGGGUGUGCACAAaa---UGUAA- -5'
miRNA: 3'- -AGuaGUa-GGG--UGUGCACAAAAugUAa -5'
miRNA: 3'- aGUAGUAgGGUGU-GCACAAAAUGUAA- -5'
miRNA: 3'- -AGUAGUAGGGUGUGCACAAAAUGUAA- -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 | |||||||
| 11280 | 3' | -45.1 | NC_003083.1 | + | 62117 | 0.66 | 0.999971 |
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Target: 5'- aUCGUCGUUagCUACGCGUGU---GCAa- -3' miRNA: 3'- -AGUAGUAG--GGUGUGCACAaaaUGUaa -5' |
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| 11280 | 3' | -45.1 | NC_003083.1 | + | 44799 | 0.66 | 0.99996 |
|
Target: 5'- aUCG-CAUUCCGUACGUGUUguuggACAUUa -3' miRNA: 3'- -AGUaGUAGGGUGUGCACAAaa---UGUAA- -5' |
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| 11280 | 3' | -45.1 | NC_003083.1 | + | 70246 | 0.66 | 0.999901 |
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Target: 5'- uUCcgCGcgCCCguACGCGUGUUUUugAUa -3' miRNA: 3'- -AGuaGUa-GGG--UGUGCACAAAAugUAa -5' |
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| 11280 | 3' | -45.1 | NC_003083.1 | + | 18986 | 0.85 | 0.518257 |
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Target: 5'- aCGUCAUgCCACAuCGUGUUUUACAUUu -3' miRNA: 3'- aGUAGUAgGGUGU-GCACAAAAUGUAA- -5' |
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| 11280 | 3' | -45.1 | NC_003083.1 | + | 19167 | 1.06 | 0.034658 |
|
Target: 5'- cUCAUCAUCCCACACGUGUUUUACAUUu -3' miRNA: 3'- -AGUAGUAGGGUGUGCACAAAAUGUAA- -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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