miRNA: 3'- -CUAaUUUGACaa----GUCGUGG--UGGUCGc -5'
miRNA: 3'- cUAAUUUGACaa-GUCGUGG-----UGGUCGc -5'
miRNA: 3'- cuaAUUUGACAagUCGUggUGGUCGc -5'
miRNA: 3'- -CUAAUUUGACAAGUCGUGGUGGUCGC- -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 | |||||||
| 33006 | 3' | -48.1 | NC_007456.1 | + | 38062 | 0.66 | 0.939316 |
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Target: 5'- aGAUgAAACUGguuaugCGGUACUguACCAGCu -3' miRNA: 3'- -CUAaUUUGACaa----GUCGUGG--UGGUCGc -5' |
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| 33006 | 3' | -48.1 | NC_007456.1 | + | 38138 | 0.68 | 0.85879 |
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Target: 5'- cGUUGAGCUGguaCAGUACCgcauaACCAGUu -3' miRNA: 3'- cUAAUUUGACaa-GUCGUGG-----UGGUCGc -5' |
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| 33006 | 3' | -48.1 | NC_007456.1 | + | 37854 | 0.69 | 0.8206 |
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Target: 5'- --aUGAACUGUagAGCGaaGCCAGCc -3' miRNA: 3'- cuaAUUUGACAagUCGUggUGGUCGc -5' |
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| 33006 | 3' | -48.1 | NC_007456.1 | + | 20701 | 1.1 | 0.002876 |
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Target: 5'- cGAUUAAACUGUUCAGCACCACCAGCGu -3' miRNA: 3'- -CUAAUUUGACAAGUCGUGGUGGUCGC- -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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