miRNA: 3'- cuGUGCCUUGGCAgAUua-GgCCAUUg -5'
miRNA: 3'- -CUGUGCCU-UGGCAgAUUAGGCCaUUG- -5'
miRNA: 3'- cuGUGCCUUGGCAGAUU------AGGCCa---UUG- -5'
miRNA: 3'- -CUGUGCCUUGGCAGAUUAGGCCAUUG- -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 | |||||||
| 1218 | 5' | -49.8 | NC_001266.1 | + | 77882 | 0.67 | 0.995677 |
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Target: 5'- -uCACGGAACCGUgUAucgUgGGUAGa -3' miRNA: 3'- cuGUGCCUUGGCAgAUua-GgCCAUUg -5' |
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| 1218 | 5' | -49.8 | NC_001266.1 | + | 74443 | 0.72 | 0.917807 |
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Target: 5'- cGAUAUGGAuACCGUaUAGUCCGG-GGCa -3' miRNA: 3'- -CUGUGCCU-UGGCAgAUUAGGCCaUUG- -5' |
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| 1218 | 5' | -49.8 | NC_001266.1 | + | 132727 | 0.73 | 0.898894 |
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Target: 5'- -uCACGGGAUCGUCUGGgcagacUCCGGguaaAACa -3' miRNA: 3'- cuGUGCCUUGGCAGAUU------AGGCCa---UUG- -5' |
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| 1218 | 5' | -49.8 | NC_001266.1 | + | 74596 | 1.09 | 0.012312 |
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Target: 5'- uGACACGGAACCGUCUAAUCCGGUAACc -3' miRNA: 3'- -CUGUGCCUUGGCAGAUUAGGCCAUUG- -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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