miRNA: 3'- aGUUGGGGGAG---CAG-CUGAUGUAcgac -5'
miRNA: 3'- aGUUG-GGGG--------------AGCAGCuGAUGUACGAC- -5'
miRNA: 3'- aGUuGGGGGA------------GCAGCUGAUGUACgac -5'
miRNA: 3'- -AGUUgGGGGAGCAGCUgA--UGUACg--AC- -5'
miRNA: 3'- -AGUUGGGGGAGCAGCUGAUGUACGAC- -5'
Results 21 - 25 of 25 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 | |||||||
| 16095 | 3' | -53.7 | NC_004065.1 | + | 14608 | 0.71 | 0.859748 |
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Target: 5'- aCAGCCCCCUCauuGUCcGACUACGUa--- -3' miRNA: 3'- aGUUGGGGGAG---CAG-CUGAUGUAcgac -5' |
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| 16095 | 3' | -53.7 | NC_004065.1 | + | 46773 | 0.72 | 0.841806 |
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Target: 5'- cCGACaCCCCgaacuucagaccguUCGUCGcCUGCAUGUUGc -3' miRNA: 3'- aGUUG-GGGG--------------AGCAGCuGAUGUACGAC- -5' |
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| 16095 | 3' | -53.7 | NC_004065.1 | + | 196886 | 0.72 | 0.827907 |
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Target: 5'- gCAuCCCCCUgcccuucacggcCGUCGACUGCAUGg-- -3' miRNA: 3'- aGUuGGGGGA------------GCAGCUGAUGUACgac -5' |
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| 16095 | 3' | -53.7 | NC_004065.1 | + | 167046 | 0.73 | 0.79329 |
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Target: 5'- gUCGGgCCCCUCGUCGAgUucGCGUGacaUGg -3' miRNA: 3'- -AGUUgGGGGAGCAGCUgA--UGUACg--AC- -5' |
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| 16095 | 3' | -53.7 | NC_004065.1 | + | 110462 | 1.08 | 0.008222 |
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Target: 5'- uUCAACCCCCUCGUCGACUACAUGCUGc -3' miRNA: 3'- -AGUUGGGGGAGCAGCUGAUGUACGAC- -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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