miRNA: 3'- aC-GCUGuaGACGUAGu----------GACGG--CAGUC- -5'
miRNA: 3'- aCGCUGuaGA------CGuaGUGA---CGGCAGUC- -5'
miRNA: 3'- aCGCUGua--GACGU---AG-------UGA--CGGCAGUC- -5'
miRNA: 3'- -ACGCUGUAGACGUAGUGACGGCAGUC- -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 | |||||||
| 31650 | 5' | -53.6 | NC_006879.1 | + | 11375 | 0.66 | 0.61454 |
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Target: 5'- cGcCGGCcgCUGCAUCuaaaacaacacCUGCCcgGUCAGg -3' miRNA: 3'- aC-GCUGuaGACGUAGu----------GACGG--CAGUC- -5' |
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| 31650 | 5' | -53.6 | NC_006879.1 | + | 12887 | 0.67 | 0.602937 |
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Target: 5'- cGCGACcgCUgguuccGCcgCACUggcGUCGUCAGa -3' miRNA: 3'- aCGCUGuaGA------CGuaGUGA---CGGCAGUC- -5' |
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| 31650 | 5' | -53.6 | NC_006879.1 | + | 10807 | 0.67 | 0.590206 |
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Target: 5'- cGCGGCugugCUGCAcgaUCaggaacaGCUggGCCGUCAGa -3' miRNA: 3'- aCGCUGua--GACGU---AG-------UGA--CGGCAGUC- -5' |
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| 31650 | 5' | -53.6 | NC_006879.1 | + | 25968 | 1.08 | 0.000828 |
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Target: 5'- cUGCGACAUCUGCAUCACUGCCGUCAGc -3' miRNA: 3'- -ACGCUGUAGACGUAGUGACGGCAGUC- -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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