miRNA: 3'- cGGCC------------UUUCGGCaac----GGCGUCCGC-UG- -5'
miRNA: 3'- cgGCC-UUUCG-------GCAACGGCGU------CCGCUG- -5'
miRNA: 3'- -CGGCCUUU-CGGCaa-------------CGg-----CGUCCGCUG- -5'
Results 21 - 23 of 23 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 | |||||||
| 21784 | 3' | -58.2 | NC_004813.1 | + | 42154 | 0.67 | 0.527624 |
|
Target: 5'- uCCGGcgugcuuaucacGAAGCCGcacgacuCCGCAGGCGcACa -3' miRNA: 3'- cGGCC------------UUUCGGCaac----GGCGUCCGC-UG- -5' |
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| 21784 | 3' | -58.2 | NC_004813.1 | + | 42668 | 0.67 | 0.505973 |
|
Target: 5'- -aUGGuGAAGCaguucacCGUUGCCGCAguauauGGCGGCa -3' miRNA: 3'- cgGCC-UUUCG-------GCAACGGCGU------CCGCUG- -5' |
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| 21784 | 3' | -58.2 | NC_004813.1 | + | 26219 | 0.69 | 0.380428 |
|
Target: 5'- cGCCGGAGGuGCCGguggcuucacgcacgGUaccggaGCAGGUGGCg -3' miRNA: 3'- -CGGCCUUU-CGGCaa-------------CGg-----CGUCCGCUG- -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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