miRNA: 3'- aGCau-CUCCaGGAGCuUGGGCUCGgg -5'
miRNA: 3'- -AGcAUCUC---------------CAGGAGCU---UGGgCUCGGG- -5'
miRNA: 3'- -AGCaUCUCcAGGAGCU-UGGgcUCGGG- -5'
miRNA: 3'- aGCaucUCCaGGAGCUUGG-GCUCGGg -5'
miRNA: 3'- aGCAUCUCCAGGAGC-----------UUG-GGC-UCGGg -5'
Results 41 - 45 of 45 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 | |||||||
| 16316 | 3' | -56.4 | NC_004084.1 | + | 52695 | 0.67 | 0.635724 |
|
Target: 5'- cCGaucGAGGaCCUCG-GCCCGAGCg- -3' miRNA: 3'- aGCau-CUCCaGGAGCuUGGGCUCGgg -5' |
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| 16316 | 3' | -56.4 | NC_004084.1 | + | 53463 | 0.67 | 0.650765 |
|
Target: 5'- cUC-UGGAGccacugcucgauuucGUCCUCGAgcgGCUgGAGCCCc -3' miRNA: 3'- -AGcAUCUC---------------CAGGAGCU---UGGgCUCGGG- -5' |
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| 16316 | 3' | -56.4 | NC_004084.1 | + | 54747 | 0.66 | 0.710334 |
|
Target: 5'- aUUGaGGAGuUCCUCGAcGCCa-AGCCCa -3' miRNA: 3'- -AGCaUCUCcAGGAGCU-UGGgcUCGGG- -5' |
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| 16316 | 3' | -56.4 | NC_004084.1 | + | 56840 | 0.68 | 0.582129 |
|
Target: 5'- gCGc--GGG-CCUCGAGCCuCGGGCCa -3' miRNA: 3'- aGCaucUCCaGGAGCUUGG-GCUCGGg -5' |
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| 16316 | 3' | -56.4 | NC_004084.1 | + | 56909 | 0.66 | 0.678592 |
|
Target: 5'- gUGUAGAGGUCCUCGucgggacggcgGACuUCGuAGUCg -3' miRNA: 3'- aGCAUCUCCAGGAGC-----------UUG-GGC-UCGGg -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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