miRNA: 3'- aCAG-CAUAUACUACGGGagCUCCuUC- -5'
miRNA: 3'- aCAgCAUAUACU------ACGGGAg---CUCCUUC- -5'
miRNA: 3'- acAGCAUAUaCUACggGAGCUCCUUc -5'
miRNA: 3'- -ACAGCAUAUACUACGGGAGCUCCUUC- -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 | |||||||
| 13334 | 5' | -49.8 | NC_003409.1 | + | 11435 | 0.66 | 0.993955 |
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Target: 5'- aGUCuGUAUGUGGUGCUUcaGAGGcGGg -3' miRNA: 3'- aCAG-CAUAUACUACGGGagCUCCuUC- -5' |
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| 13334 | 5' | -49.8 | NC_003409.1 | + | 51523 | 0.67 | 0.992995 |
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Target: 5'- gGUgGUGUGUGGgaaacgUGUCCUgccaGGGGAGGa -3' miRNA: 3'- aCAgCAUAUACU------ACGGGAg---CUCCUUC- -5' |
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| 13334 | 5' | -49.8 | NC_003409.1 | + | 32638 | 0.67 | 0.990713 |
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Target: 5'- -cUCGUGUAcGAUGggCUCGAGGAGa -3' miRNA: 3'- acAGCAUAUaCUACggGAGCUCCUUc -5' |
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| 13334 | 5' | -49.8 | NC_003409.1 | + | 108419 | 1.09 | 0.010285 |
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Target: 5'- uUGUCGUAUAUGAUGCCCUCGAGGAAGc -3' miRNA: 3'- -ACAGCAUAUACUACGGGAGCUCCUUC- -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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