miRNA: 3'- caGCAGGuCCAGGUACaCGa--GGU-GUG- -5'
miRNA: 3'- cAGC--AGGu-------CCAGG---------------UACACGAGGUGUG- -5'
miRNA: 3'- -CAGCAGGUCCaGGUacaCGAGGUGUg -5'
miRNA: 3'- cagCAGGUCCaGGUaCaCGAGGUGUG- -5'
Results 21 - 24 of 24 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 | |||||||
| 23611 | 3' | -55.7 | NC_005261.1 | + | 33284 | 0.66 | 0.887702 |
|
Target: 5'- -cCGUCCcGGUCCGUGgGCaccCCGuCGCg -3' miRNA: 3'- caGCAGGuCCAGGUACaCGa--GGU-GUG- -5' |
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| 23611 | 3' | -55.7 | NC_005261.1 | + | 24419 | 0.68 | 0.774362 |
|
Target: 5'- cUCGgaUCCucgguugcGGUCCgcggcgauggacgagGUGUGCUCCGCGCu -3' miRNA: 3'- cAGC--AGGu-------CCAGG---------------UACACGAGGUGUG- -5' |
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| 23611 | 3' | -55.7 | NC_005261.1 | + | 18065 | 0.71 | 0.628815 |
|
Target: 5'- aGUCGUCCAGGcCCA---GCUCUGCGg -3' miRNA: 3'- -CAGCAGGUCCaGGUacaCGAGGUGUg -5' |
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| 23611 | 3' | -55.7 | NC_005261.1 | + | 4176 | 0.66 | 0.894525 |
|
Target: 5'- --gGUCCGGGcCCGcGaGCUUCGCGCu -3' miRNA: 3'- cagCAGGUCCaGGUaCaCGAGGUGUG- -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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