miRNA: 3'- cuGGGCuaCuaCAGCG--AGCGGCaCGU- -5'
miRNA: 3'- cUGGGCUACUa--CAGCGAG--CGGCaCGU- -5'
miRNA: 3'- cUGGGCUACua----------C-AGCGAGCGGCaCGU- -5'
Results 1 - 3 of 3 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 | |||||||
| 12198 | 3' | -56.9 | NC_003309.1 | + | 10900 | 0.67 | 0.556914 |
|
Target: 5'- -cCCCGccGcgGUCGCggUCGCCGcGCGu -3' miRNA: 3'- cuGGGCuaCuaCAGCG--AGCGGCaCGU- -5' |
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| 12198 | 3' | -56.9 | NC_003309.1 | + | 21987 | 0.68 | 0.493871 |
|
Target: 5'- uGCUCGAUGAgccGUUGCUCgaGCCGcGCGc -3' miRNA: 3'- cUGGGCUACUa--CAGCGAG--CGGCaCGU- -5' |
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| 12198 | 3' | -56.9 | NC_003309.1 | + | 31450 | 0.67 | 0.56336 |
|
Target: 5'- cGCCCGAUGcaucccgacuggGcUCGCUCGCUG-GCGa -3' miRNA: 3'- cUGGGCUACua----------C-AGCGAGCGGCaCGU- -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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