miRNA: 3'- -CCAG--UCUUGGGGUacaUGUgUUUGUu -5'
miRNA: 3'- cCAGUCuUGGGGUACa------UGUGU-UUGUu -5'
miRNA: 3'- ccAGUCUUGGGGU-------ACAUGU--GUUUGUU- -5'
miRNA: 3'- -CCAGUCUUGGGGUACAUGUGUUUGUU- -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 | |||||||
| 4366 | 5' | -47.9 | NC_001720.1 | + | 19231 | 0.66 | 0.955628 |
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Target: 5'- uGGUCguGGAACUCCAgg-ACAgAAACAc -3' miRNA: 3'- -CCAG--UCUUGGGGUacaUGUgUUUGUu -5' |
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| 4366 | 5' | -47.9 | NC_001720.1 | + | 20808 | 0.69 | 0.87903 |
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Target: 5'- uGUCAG-ACCCCGUGgucuacgGCGCGcAACGc -3' miRNA: 3'- cCAGUCuUGGGGUACa------UGUGU-UUGUu -5' |
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| 4366 | 5' | -47.9 | NC_001720.1 | + | 2597 | 0.73 | 0.655855 |
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Target: 5'- -uUCAGGACCCCAgucuugaUGUACAgcCAGGCGGa -3' miRNA: 3'- ccAGUCUUGGGGU-------ACAUGU--GUUUGUU- -5' |
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| 4366 | 5' | -47.9 | NC_001720.1 | + | 20905 | 1.09 | 0.004073 |
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Target: 5'- gGGUCAGAACCCCAUGUACACAAACAAc -3' miRNA: 3'- -CCAGUCUUGGGGUACAUGUGUUUGUU- -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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