miRNA: 3'- gaCGUAGUa--GCCGG----------UCa---GCaGGUCCG- -5'
miRNA: 3'- gaCGUAGUAGcCGGu--CAGCAGGuCCG- -5'
miRNA: 3'- -GACGUAGua-----------GCCGGUCa--GCaGGUCCG- -5'
miRNA: 3'- gaCGUA---------GUAgCCGGU-CAGCAgGUCCG- -5'
Results 81 - 84 of 84 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
|
R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 23606 | 5' | -56 | NC_005261.1 | + | 122286 | 0.66 | 0.881916 |
|
Target: 5'- -aGCAUCAgcgCGGCCccgcugccgcAGgcgaCGcCCGGGCc -3' miRNA: 3'- gaCGUAGUa--GCCGG----------UCa---GCaGGUCCG- -5' |
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| 23606 | 5' | -56 | NC_005261.1 | + | 124865 | 0.67 | 0.827282 |
|
Target: 5'- -gGCGUCGUC-GCCuucGUCGUCU-GGCc -3' miRNA: 3'- gaCGUAGUAGcCGGu--CAGCAGGuCCG- -5' |
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| 23606 | 5' | -56 | NC_005261.1 | + | 126922 | 0.75 | 0.421806 |
|
Target: 5'- uCUGCAUCcguuccagcagcgCGGCCAGgggCG-CCGGGCg -3' miRNA: 3'- -GACGUAGua-----------GCCGGUCa--GCaGGUCCG- -5' |
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| 23606 | 5' | -56 | NC_005261.1 | + | 136933 | 0.66 | 0.874741 |
|
Target: 5'- -cGCAUguggugguaCAUgGGCCGcGUCGU-CGGGCa -3' miRNA: 3'- gaCGUA---------GUAgCCGGU-CAGCAgGUCCG- -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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