miRNA: 3'- auaGGGGG----UGGGGa-AGACGUCuACGG- -5'
miRNA: 3'- auaGGGGG-UGGGGAaga----CGU--CUACGG- -5'
miRNA: 3'- aUAGGGGG----UGGGGaaGACgUCUACGg -5'
miRNA: 3'- aUAGGGGGUGGGGaAgaCGUCUACgg -5'
miRNA: 3'- -AUAGGGGGUGGGGAAGACGUCUACGG- -5'
Results 1 - 5 of 5 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 | |||||||
| 7440 | 5' | -57.3 | NC_001902.1 | + | 14420 | 0.66 | 0.358172 |
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Target: 5'- --aCCCCUggauACCCCcaUUUGUAGcUGCCg -3' miRNA: 3'- auaGGGGG----UGGGGa-AGACGUCuACGG- -5' |
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| 7440 | 5' | -57.3 | NC_001902.1 | + | 17798 | 0.66 | 0.34052 |
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Target: 5'- --aCCCCCaACUCCUgaauuggGCAgcGAUGCCu -3' miRNA: 3'- auaGGGGG-UGGGGAaga----CGU--CUACGG- -5' |
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| 7440 | 5' | -57.3 | NC_001902.1 | + | 25005 | 0.7 | 0.187685 |
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Target: 5'- cAUCCCCUaaugGCCCC--CUGgGGAUGCg -3' miRNA: 3'- aUAGGGGG----UGGGGaaGACgUCUACGg -5' |
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| 7440 | 5' | -57.3 | NC_001902.1 | + | 22686 | 0.73 | 0.111092 |
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Target: 5'- gAUUCCCCGCCCCcUgaGCGGAUGa- -3' miRNA: 3'- aUAGGGGGUGGGGaAgaCGUCUACgg -5' |
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| 7440 | 5' | -57.3 | NC_001902.1 | + | 8544 | 1.11 | 0.000137 |
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Target: 5'- aUAUCCCCCACCCCUUCUGCAGAUGCCa -3' miRNA: 3'- -AUAGGGGGUGGGGAAGACGUCUACGG- -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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