miRNA: 3'- -GGCAGUCGCAGa---GGCaCU------------UGUGACuG- -5'
miRNA: 3'- -GGCAGUCGCAGa-GGCACU--------------UGUGaCUG- -5'
miRNA: 3'- -GGC--AGUCGCAG---AGGCAcuUGUGACUG- -5'
miRNA: 3'- -GGCAGUCGCAGAGGCACUUGUGACUG- -5'
Results 21 - 24 of 24 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 | |||||||
| 8127 | 3' | -53 | NC_001978.2 | + | 18168 | 0.74 | 0.318193 |
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Target: 5'- aCCGUCAGCGUCggcgCCG-GAguaaccgcgcuuGCGCUGcCa -3' miRNA: 3'- -GGCAGUCGCAGa---GGCaCU------------UGUGACuG- -5' |
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| 8127 | 3' | -53 | NC_001978.2 | + | 31341 | 0.78 | 0.190742 |
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Target: 5'- gCCGUCGGCGUUggCCGUGAcgaacucgacguugGCGCcGACg -3' miRNA: 3'- -GGCAGUCGCAGa-GGCACU--------------UGUGaCUG- -5' |
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| 8127 | 3' | -53 | NC_001978.2 | + | 13571 | 0.79 | 0.176988 |
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Target: 5'- cCCGguUCGGCGUCgacUCCGUucGCGCUGACg -3' miRNA: 3'- -GGC--AGUCGCAG---AGGCAcuUGUGACUG- -5' |
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| 8127 | 3' | -53 | NC_001978.2 | + | 26778 | 1.11 | 0.000926 |
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Target: 5'- uCCGUCAGCGUCUCCGUGAACACUGACu -3' miRNA: 3'- -GGCAGUCGCAGAGGCACUUGUGACUG- -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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