miRNA: 3'- aGUAG-CugGUGGGCGAGcUGCACaAG- -5'
miRNA: 3'- aguAGCUGGUGGGCGAGcUGC----ACAAG- -5'
miRNA: 3'- aGUaGCUGGugGGCGAgcUGCACAAG- -5'
miRNA: 3'- -AGUAGCUGGUGGGCGAGCUGCACAAG- -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 | |||||||
| 3500 | 3' | -54.4 | NC_001623.1 | + | 119862 | 0.66 | 0.928605 |
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Target: 5'- gCGUUaGugCACUCGCUCaACGUGaUCg -3' miRNA: 3'- aGUAG-CugGUGGGCGAGcUGCACaAG- -5' |
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| 3500 | 3' | -54.4 | NC_001623.1 | + | 130807 | 0.69 | 0.839713 |
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Target: 5'- --cUCGGCCACCUGCUU-ACGcaauUGUUCu -3' miRNA: 3'- aguAGCUGGUGGGCGAGcUGC----ACAAG- -5' |
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| 3500 | 3' | -54.4 | NC_001623.1 | + | 59413 | 0.7 | 0.805218 |
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Target: 5'- cCAcCGACUugCUGCUgaACGUGUUCa -3' miRNA: 3'- aGUaGCUGGugGGCGAgcUGCACAAG- -5' |
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| 3500 | 3' | -54.4 | NC_001623.1 | + | 2521 | 1.11 | 0.002905 |
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Target: 5'- gUCAUCGACCACCCGCUCGACGUGUUCg -3' miRNA: 3'- -AGUAGCUGGUGGGCGAGCUGCACAAG- -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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