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miRNA: 3'- gcaCCU---GCuCuuCCGCCUGGu--CCCAC- -5'
miRNA: 3'- gCACC-UGCU--CUUCCG---CCU---------------GGUCCCAC- -5'
miRNA: 3'- gCACC-----------UGCuCuuCCG---CCUGGUCCC-AC- -5'
miRNA: 3'- -GCACCUGCU-CU-----UCC-GC-CUGGU-CCCac -5'
Results 101 - 104 of 104 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position |
R_P_ratio#
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P value |
| Predicted miRNA align pattern | |||||||
| 5241 | 3' | -58.4 | NC_001798.1 | + | 30488 | 0.66 | 0.815126 |
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Target: 5'- --gGGAuccUGuGggGGUGGGCCcguGGGUGa -3' miRNA: 3'- gcaCCU---GCuCuuCCGCCUGGu--CCCAC- -5' |
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| 5241 | 3' | -58.4 | NC_001798.1 | + | 149295 | 0.66 | 0.810012 |
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Target: 5'- gGUGGcGCGAccGGAGGCcguGGAaguccagcgcgcccaCCAGGGUGc -3' miRNA: 3'- gCACC-UGCU--CUUCCG---CCU---------------GGUCCCAC- -5' |
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| 5241 | 3' | -58.4 | NC_001798.1 | + | 107848 | 0.66 | 0.806572 |
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Target: 5'- uGUGGuguguccauaaGCGcGggGGUucgGGGCCAGGGcUGg -3' miRNA: 3'- gCACC-----------UGCuCuuCCG---CCUGGUCCC-AC- -5' |
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| 5241 | 3' | -58.4 | NC_001798.1 | + | 51069 | 0.66 | 0.823521 |
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Target: 5'- aCGUGGACGAcGAcagcgAGGuCGaGGCCGcGGGg- -3' miRNA: 3'- -GCACCUGCU-CU-----UCC-GC-CUGGU-CCCac -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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