miRNA: 3'- cUGGcCGCGUCGGUGucGUUGUUCCa -5'
miRNA: 3'- cuGGCCG----CG------UCGGUGUCGUUGuUCCA- -5'
miRNA: 3'- cUGGCCg-CGUCGGUGuCGUUGU-------UCCA- -5'
miRNA: 3'- -CUGGCCGCGUCGGUGUCGUUGUUCCA- -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 | |||||||
| 27272 | 3' | -57.7 | NC_005841.1 | + | 9349 | 0.67 | 0.374793 |
|
Target: 5'- aGCUcGCGCAGCCAU--CAGCAAGGc -3' miRNA: 3'- cUGGcCGCGUCGGUGucGUUGUUCCa -5' |
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| 27272 | 3' | -57.7 | NC_005841.1 | + | 13232 | 0.68 | 0.348547 |
|
Target: 5'- -gUCGGCuauuGCaagaaaAGCCGCAGCAGCuAGGUg -3' miRNA: 3'- cuGGCCG----CG------UCGGUGUCGUUGuUCCA- -5' |
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| 27272 | 3' | -57.7 | NC_005841.1 | + | 27560 | 0.67 | 0.392094 |
|
Target: 5'- uGCUGGaaGCAGCCACcGCGGCAgugaaagAGGUc -3' miRNA: 3'- cUGGCCg-CGUCGGUGuCGUUGU-------UCCA- -5' |
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| 27272 | 3' | -57.7 | NC_005841.1 | + | 36695 | 1.07 | 0.000431 |
|
Target: 5'- gGACCGGCGCAGCCACAGCAACAAGGUg -3' miRNA: 3'- -CUGGCCGCGUCGGUGUCGUUGUUCCA- -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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