miRNA: 3'- -CGUCGGG-ACCuu---CUgCGGC-GCGCACG- -5'
miRNA: 3'- -CGUCG---------GGACCu------UCUGCGGCGCG--CACg -5'
miRNA: 3'- cgUCGGGACCuuCUG-CGg----CGCGCaCG- -5'
miRNA: 3'- -CGUCGGGACCUUCUGCGGCGCGCACG- -5'
Results 21 - 24 of 24 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 | |||||||
| 6211 | 3' | -59.5 | NC_001844.1 | + | 142203 | 0.7 | 0.51771 |
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Target: 5'- gGCGGCUCaUGGccaccGAgGCUGcCGCGUGCg -3' miRNA: 3'- -CGUCGGG-ACCuu---CUgCGGC-GCGCACG- -5' |
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| 6211 | 3' | -59.5 | NC_001844.1 | + | 136301 | 0.7 | 0.508182 |
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Target: 5'- cGCGGUggggagguaCCUGGuagaccuAGGCGCCGCGCcgGUGg -3' miRNA: 3'- -CGUCG---------GGACCu------UCUGCGGCGCG--CACg -5' |
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| 6211 | 3' | -59.5 | NC_001844.1 | + | 143560 | 0.71 | 0.470861 |
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Target: 5'- -gAGCUCUGGggGACaGUaagcaGCGCGgGCa -3' miRNA: 3'- cgUCGGGACCuuCUG-CGg----CGCGCaCG- -5' |
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| 6211 | 3' | -59.5 | NC_001844.1 | + | 68423 | 1.12 | 0.000791 |
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Target: 5'- gGCAGCCCUGGAAGACGCCGCGCGUGCu -3' miRNA: 3'- -CGUCGGGACCUUCUGCGGCGCGCACG- -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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