miRNA: 3'- cCGCCCUCCCguaauUUCGuuUGGuG- -5'
miRNA: 3'- -CCGCCCUCCCGUAAUUUCGUUUGGUG- -5'
miRNA: 3'- -CCGCC-CU----------CCCGUaauUUCGUUUGGUG- -5'
miRNA: 3'- cCGCCCUcCCGUa-AUUUCGUU-UGGUG- -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 |
| Predicted miRNA align pattern | |||||||
| 83 | 3' | -51.3 | AC_000005.1 | + | 20127 | 0.67 | 0.708539 |
|
Target: 5'- uGCGGGAGGGac---AAGCuuACCcCg -3' miRNA: 3'- cCGCCCUCCCguaauUUCGuuUGGuG- -5' |
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| 83 | 3' | -51.3 | AC_000005.1 | + | 18318 | 1.12 | 0.000735 |
|
Target: 5'- uGGCGGGAGGGCAUUAAAGCAAACCACu -3' miRNA: 3'- -CCGCCCUCCCGUAAUUUCGUUUGGUG- -5' |
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| 83 | 3' | -51.3 | AC_000005.1 | + | 15262 | 0.7 | 0.532923 |
|
Target: 5'- gGGCGGcGAgcuaugaugcGGGCAgccAGGCGGGCUGCa -3' miRNA: 3'- -CCGCC-CU----------CCCGUaauUUCGUUUGGUG- -5' |
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| 83 | 3' | -51.3 | AC_000005.1 | + | 13516 | 0.68 | 0.638185 |
|
Target: 5'- aGCGGGGaGGCAcgUAGGGUGGcGCCGCu -3' miRNA: 3'- cCGCCCUcCCGUa-AUUUCGUU-UGGUG- -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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