miRNA: 3'- -UAGUGgaCUA--GGCGGGCGUuu-GCGCG- -5'
miRNA: 3'- uaGUGGACuAGGCGG------------GCGUUUGCGCG- -5'
miRNA: 3'- uAG-UGGACUAGGCG-GG---------------CGUUUGCGCG- -5'
miRNA: 3'- -UAGUGGACUAGGCGGGCGUUUGCGCG- -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 | |||||||
| 23125 | 5' | -56.4 | NC_005178.1 | + | 1528 | 0.75 | 0.142653 |
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Target: 5'- cGUUACgaGGUcgCCGCCCGCAuguCGCGCc -3' miRNA: 3'- -UAGUGgaCUA--GGCGGGCGUuu-GCGCG- -5' |
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| 23125 | 5' | -56.4 | NC_005178.1 | + | 15657 | 0.76 | 0.123662 |
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Target: 5'- -cCACCUG-UUCGCCgaaaugagcaagCGCAAGCGCGCu -3' miRNA: 3'- uaGUGGACuAGGCGG------------GCGUUUGCGCG- -5' |
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| 23125 | 5' | -56.4 | NC_005178.1 | + | 12255 | 0.76 | 0.118097 |
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Target: 5'- cUCgACCUGGUCCGCaCCcugcugaaggucagcGCGGAUGCGCa -3' miRNA: 3'- uAG-UGGACUAGGCG-GG---------------CGUUUGCGCG- -5' |
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| 23125 | 5' | -56.4 | NC_005178.1 | + | 19554 | 1.09 | 0.000398 |
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Target: 5'- gAUCACCUGAUCCGCCCGCAAACGCGCu -3' miRNA: 3'- -UAGUGGACUAGGCGGGCGUUUGCGCG- -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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