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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 | |||||||
| 4340 | 3' | -56.8 | NC_001720.1 | + | 20317 | 1.09 | 0.000517 |
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Target: 5'- aAACCGACGUCGUACUGAGCGCCCAGCu -3' miRNA: 3'- -UUGGCUGCAGCAUGACUCGCGGGUCG- -5' |
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| 4340 | 3' | -56.8 | NC_001720.1 | + | 17867 | 0.77 | 0.112051 |
|
Target: 5'- cGGCCGAUGUCGU-CaGGGCcCCCAGCg -3' miRNA: 3'- -UUGGCUGCAGCAuGaCUCGcGGGUCG- -5' |
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| 4340 | 3' | -56.8 | NC_001720.1 | + | 8738 | 0.69 | 0.397418 |
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Target: 5'- --aCGAUGUCGUACUGcugGCCCGGg -3' miRNA: 3'- uugGCUGCAGCAUGACucgCGGGUCg -5' |
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| 4340 | 3' | -56.8 | NC_001720.1 | + | 20196 | 0.69 | 0.379258 |
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Target: 5'- cGGCCGgaACGUUGUAgaGAGCGUUCuuGGCg -3' miRNA: 3'- -UUGGC--UGCAGCAUgaCUCGCGGG--UCG- -5' |
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| 4340 | 3' | -56.8 | NC_001720.1 | + | 20229 | 0.66 | 0.560128 |
|
Target: 5'- aGGCCucggaGACGcCccaGCUGGGCGCUCAGUa -3' miRNA: 3'- -UUGG-----CUGCaGca-UGACUCGCGGGUCG- -5' |
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| 4340 | 3' | -56.8 | NC_001720.1 | + | 19395 | 0.66 | 0.560128 |
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Target: 5'- -gUCGugGUCGUACUG-GUcgacgGCCUGGUu -3' miRNA: 3'- uuGGCugCAGCAUGACuCG-----CGGGUCG- -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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