miRNA: 3'- cagCCCaGcGGCGAGCG--------UCGGCUCUG- -5'
miRNA: 3'- caGCCCAG-CGG-CGaGCguCGGC-UCUG- -5'
miRNA: 3'- caGCCC-AGCGGCGAgCGuCGGCUCUG- -5'
miRNA: 3'- -CAGCCca--GCGGCGag---CGUCGG---CUCUG- -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 |
| Predicted miRNA align pattern | |||||||
| 18564 | 5' | -61.8 | NC_004682.1 | + | 43980 | 0.66 | 0.343403 |
|
Target: 5'- --aGGGgCaCCGCUCGUacugcuugAGCUGAGACa -3' miRNA: 3'- cagCCCaGcGGCGAGCG--------UCGGCUCUG- -5' |
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| 18564 | 5' | -61.8 | NC_004682.1 | + | 44526 | 0.66 | 0.367934 |
|
Target: 5'- -gCGGGUCgGCCuGUcCGguGCCGuGGACc -3' miRNA: 3'- caGCCCAG-CGG-CGaGCguCGGC-UCUG- -5' |
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| 18564 | 5' | -61.8 | NC_004682.1 | + | 49390 | 0.74 | 0.097128 |
|
Target: 5'- -aCGGGcUCGCCGCUgGC-GUCGAGAUu -3' miRNA: 3'- caGCCC-AGCGGCGAgCGuCGGCUCUG- -5' |
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| 18564 | 5' | -61.8 | NC_004682.1 | + | 50354 | 0.67 | 0.312564 |
|
Target: 5'- cGUCGGugagCGCCGCcggaaGCGGCCcugGAGGCc -3' miRNA: 3'- -CAGCCca--GCGGCGag---CGUCGG---CUCUG- -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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