miRNA: 3'- -GCUaCUGCG----------AGGUUCg--CCGCUUAUGC- -5'
miRNA: 3'- gCUACU------GCGAGGUUCGCCG----CUUAUgC- -5'
miRNA: 3'- -GCuACUGCG-----AGGUUCGcCG-CUUAUGC- -5'
miRNA: 3'- -GCUACUGCGAGGUUCGCCGCUUAUGC- -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 | |||||||
| 32851 | 5' | -52.3 | NC_007383.1 | + | 128527 | 0.66 | 0.979813 |
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Target: 5'- uCGA-GACGUuagacccaauUUCGAGacgGGCGAAUGCGa -3' miRNA: 3'- -GCUaCUGCG----------AGGUUCg--CCGCUUAUGC- -5' |
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| 32851 | 5' | -52.3 | NC_007383.1 | + | 115866 | 0.68 | 0.942183 |
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Target: 5'- uGGUGGuaagcuUGUUCCAAGCGGCcgguGAGUAgGa -3' miRNA: 3'- gCUACU------GCGAGGUUCGCCG----CUUAUgC- -5' |
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| 32851 | 5' | -52.3 | NC_007383.1 | + | 55122 | 0.69 | 0.896502 |
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Target: 5'- gCGuUGACGCcauugUCCAAGCcGCcGGAUGCGa -3' miRNA: 3'- -GCuACUGCG-----AGGUUCGcCG-CUUAUGC- -5' |
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| 32851 | 5' | -52.3 | NC_007383.1 | + | 22526 | 1.1 | 0.005157 |
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Target: 5'- cCGAUGACGCUCCAAGCGGCGAAUACGa -3' miRNA: 3'- -GCUACUGCGAGGUUCGCCGCUUAUGC- -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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