miRNA: 3'- -ACAGCaC-UCGUGaaaGACACGUUUCg -5'
miRNA: 3'- aCAGCACUCG-----UGAaa--GACa-CGU--UUCG- -5'
miRNA: 3'- aCAGCAC---UCGUGAa-AGAC----ACGUUUCg -5'
miRNA: 3'- -ACAGCACUCGUGAAAGACACGUUUCG- -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 | |||||||
| 24997 | 5' | -47.9 | NC_005288.1 | + | 243 | 0.68 | 0.498976 |
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Target: 5'- gUGUUG-GuAGCACagcCUGUGCAGAGg -3' miRNA: 3'- -ACAGCaC-UCGUGaaaGACACGUUUCg -5' |
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| 24997 | 5' | -47.9 | NC_005288.1 | + | 5412 | 0.69 | 0.426427 |
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Target: 5'- cGUCGUGAGUgagaaGCUggagCUGgaGCAcgAAGCa -3' miRNA: 3'- aCAGCACUCG-----UGAaa--GACa-CGU--UUCG- -5' |
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| 24997 | 5' | -47.9 | NC_005288.1 | + | 882 | 0.7 | 0.36052 |
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Target: 5'- aGUUGUGuuaAGCACUggUCUGcaaaUGCAGAGa -3' miRNA: 3'- aCAGCAC---UCGUGAa-AGAC----ACGUUUCg -5' |
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| 24997 | 5' | -47.9 | NC_005288.1 | + | 246 | 1.13 | 0.000235 |
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Target: 5'- gUGUCGUGAGCACUUUCUGUGCAAAGCu -3' miRNA: 3'- -ACAGCACUCGUGAAAGACACGUUUCG- -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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