miRNA: 3'- -AGGUCUUCGCAUGAUCUCUUUCUAGC- -5'
miRNA: 3'- aGGUCUUCGCAUGa-----UCUCUU--UCUagc -5'
miRNA: 3'- -AGGUCUucGCaUGAuCUCUUUCUAGC- -5'
miRNA: 3'- -AGGUCUUCgCAUGAUcUCuUUCUAGC- -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
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| Predicted miRNA align pattern | |||||||
| 1172 | 3' | -47 | NC_001132.2 | + | 151029 | 1.12 | 0.01607 |
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Target: 5'- aUCCAGAAGCGUACUAGAGAAAGAUCGa -3' miRNA: 3'- -AGGUCUUCGCAUGAUCUCUUUCUAGC- -5' |
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| 1172 | 3' | -47 | NC_001132.2 | + | 159283 | 0.7 | 0.994742 |
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Target: 5'- cCUAGAGGCGUACgacccgGGAGGAcaGGAg-- -3' miRNA: 3'- aGGUCUUCGCAUGa-----UCUCUU--UCUagc -5' |
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| 1172 | 3' | -47 | NC_001132.2 | + | 10966 | 0.68 | 0.999296 |
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Target: 5'- uUCCGGA--CG-ACUuGGGAGAGAUCGu -3' miRNA: 3'- -AGGUCUucGCaUGAuCUCUUUCUAGC- -5' |
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| 1172 | 3' | -47 | NC_001132.2 | + | 14556 | 0.66 | 0.999867 |
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Target: 5'- uUCCGGAAGgGUGUUAcGGcAGGAUCGc -3' miRNA: 3'- -AGGUCUUCgCAUGAUcUCuUUCUAGC- -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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