miRNA: 3'- gCGACGaCUUGGU----GUGCaUGCGGAUg -5'
miRNA: 3'- -GCGa--CGACU------------UGGUGUGCAUGCGGaUG- -5'
miRNA: 3'- gCGACGACuUGGUGUGCa---UGCGGa---UG- -5'
miRNA: 3'- -GCGACGa---CUUGGUGugCAuGCGGAUg -5'
miRNA: 3'- -GCGACGACUUGGUGUGCAUGCGGAUG- -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 | |||||||
| 18698 | 5' | -53.7 | NC_004682.1 | + | 33506 | 0.73 | 0.343603 |
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Target: 5'- uGCUGCgGGGCCAgcuuCGCGaACGCCUGg -3' miRNA: 3'- gCGACGaCUUGGU----GUGCaUGCGGAUg -5' |
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| 18698 | 5' | -53.7 | NC_004682.1 | + | 5036 | 0.75 | 0.295584 |
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Target: 5'- gCGCcacGCUGAucccgccgaaggGCUACGCGUACGCCgACg -3' miRNA: 3'- -GCGa--CGACU------------UGGUGUGCAUGCGGaUG- -5' |
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| 18698 | 5' | -53.7 | NC_004682.1 | + | 47039 | 0.76 | 0.246356 |
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Target: 5'- aGCUGCUGcGCCACGCGgaggAUGUCguggGCa -3' miRNA: 3'- gCGACGACuUGGUGUGCa---UGCGGa---UG- -5' |
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| 18698 | 5' | -53.7 | NC_004682.1 | + | 27568 | 0.8 | 0.126911 |
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Target: 5'- gCGCUGCggcaGAGCCGCugGUuCGCCUGg -3' miRNA: 3'- -GCGACGa---CUUGGUGugCAuGCGGAUg -5' |
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| 18698 | 5' | -53.7 | NC_004682.1 | + | 16435 | 1.09 | 0.001183 |
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Target: 5'- cCGCUGCUGAACCACACGUACGCCUACc -3' miRNA: 3'- -GCGACGACUUGGUGUGCAUGCGGAUG- -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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