miRNA: 3'- cCCG-CACGuaacCGACCGGUaCCGaa -5'
miRNA: 3'- cCCGCA-CGua---ACCG-------ACCGGUACCGaa -5'
miRNA: 3'- -CCCGCa-CGuaaCCGA------------CCGGUACCGAa -5'
miRNA: 3'- -CCCGCACGUAACCGACCGGUACCGAA- -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 | |||||||
| 7054 | 5' | -58.3 | NC_001876.1 | + | 27573 | 0.66 | 0.375416 |
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Target: 5'- aGGCuGUGCuc--GCUGGCCGaGGCg- -3' miRNA: 3'- cCCG-CACGuaacCGACCGGUaCCGaa -5' |
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| 7054 | 5' | -58.3 | NC_001876.1 | + | 14885 | 0.67 | 0.291071 |
|
Target: 5'- cGGCGUcGCcgagcUGGCgccgccaUGGCCAUGGCc- -3' miRNA: 3'- cCCGCA-CGua---ACCG-------ACCGGUACCGaa -5' |
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| 7054 | 5' | -58.3 | NC_001876.1 | + | 11212 | 0.72 | 0.142692 |
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Target: 5'- gGGGCGggGCccaGGCUucggggcgcuucGGCCAUGGCUa -3' miRNA: 3'- -CCCGCa-CGuaaCCGA------------CCGGUACCGAa -5' |
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| 7054 | 5' | -58.3 | NC_001876.1 | + | 20676 | 1.07 | 0.000249 |
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Target: 5'- gGGGCGUGCAUUGGCUGGCCAUGGCUUg -3' miRNA: 3'- -CCCGCACGUAACCGACCGGUACCGAA- -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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