miRNA: 3'- aCCU-------CGGGGcUUCGg---GUUUCGG---UUGG- -5'
miRNA: 3'- -ACC--UCGGGGCuu--CGGGUuUC---------GGUUGG- -5'
miRNA: 3'- aC-CUCGGGGcUUCGGGUUUCGGUuGG- -5'
miRNA: 3'- aCC-UCGGGGCuuCGgGUUUCGGUUgg -5'
miRNA: 3'- -ACCUCGGGGCUUCGGGUUUCGGUUGG- -5'
Results 1 - 5 of 5 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 | |||||||
| 8402 | 3' | -56.8 | NC_002077.1 | + | 2423 | 0.66 | 0.09346 |
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Target: 5'- cGGAcgcagcgGCCCUcGAGCacgaCAAGGCCuacGACCa -3' miRNA: 3'- aCCU-------CGGGGcUUCGg---GUUUCGG---UUGG- -5' |
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| 8402 | 3' | -56.8 | NC_002077.1 | + | 1183 | 0.67 | 0.068715 |
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Target: 5'- cUGGuaGGCCCCGcuccGCCCGcGGacauuaaaaCCAACCg -3' miRNA: 3'- -ACC--UCGGGGCuu--CGGGUuUC---------GGUUGG- -5' |
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| 8402 | 3' | -56.8 | NC_002077.1 | + | 4153 | 0.67 | 0.068715 |
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Target: 5'- gGcGGGUUCUuGAGUCCAAAGCCGcCCa -3' miRNA: 3'- aC-CUCGGGGcUUCGGGUUUCGGUuGG- -5' |
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| 8402 | 3' | -56.8 | NC_002077.1 | + | 3311 | 0.72 | 0.02561 |
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Target: 5'- aGGcAGCCCUGguGCgCAGAGCCGAg- -3' miRNA: 3'- aCC-UCGGGGCuuCGgGUUUCGGUUgg -5' |
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| 8402 | 3' | -56.8 | NC_002077.1 | + | 2300 | 1.12 | 0.000007 |
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Target: 5'- cUGGAGCCCCGAAGCCCAAAGCCAACCa -3' miRNA: 3'- -ACCUCGGGGCUUCGGGUUUCGGUUGG- -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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