miRNA: 3'- -UCC-CUA------CCUGCGCCGaa-GCCaGCGUU- -5'
miRNA: 3'- uCC-CUaCCUGCGCCGAAGc----CAGCGUu -5'
miRNA: 3'- -UC-CCUA---------CCUGCGCCGaAGCCAGCGuu -5'
miRNA: 3'- -UCCCUACCUGCGCCGAAGCCAGCGUU- -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 | |||||||
| 1410 | 5' | -59 | NC_001335.1 | + | 48795 | 0.66 | 0.474609 |
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Target: 5'- gAGGuGGUcgagcaGGACGCGGCgacCGGaCGCGGu -3' miRNA: 3'- -UCC-CUA------CCUGCGCCGaa-GCCaGCGUU- -5' |
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| 1410 | 5' | -59 | NC_001335.1 | + | 15415 | 0.67 | 0.407369 |
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Target: 5'- cGGcGA-GGGCGCGGCUUCccccaGUUGCGu -3' miRNA: 3'- uCC-CUaCCUGCGCCGAAGc----CAGCGUu -5' |
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| 1410 | 5' | -59 | NC_001335.1 | + | 13016 | 0.73 | 0.178824 |
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Target: 5'- aGGcGGAUagacaaucgGGGCGCGGUgUCGGUCGCu- -3' miRNA: 3'- -UC-CCUA---------CCUGCGCCGaAGCCAGCGuu -5' |
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| 1410 | 5' | -59 | NC_001335.1 | + | 45766 | 1.06 | 0.000614 |
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Target: 5'- aAGGGAUGGACGCGGCUUCGGUCGCAAa -3' miRNA: 3'- -UCCCUACCUGCGCCGAAGCCAGCGUU- -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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