miRNA: 3'- cAGCCC--AgCGGCGAGCGUCG--GCUC-UG- -5'
miRNA: 3'- caGC-CCAG--CGGCGA-------------GCGUCGGCUCUG- -5'
miRNA: 3'- caGCCC-AGCGGCGAgCGuCGGCUCUG- -5'
miRNA: 3'- -CAGCCCAGCGGCGAGCGUCGGCUCUG- -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 | |||||||
| 18564 | 5' | -61.8 | NC_004682.1 | + | 28096 | 0.7 | 0.189691 |
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Target: 5'- cUCGGGcgUgGCUGCUCGCGGCggCGAGcGCg -3' miRNA: 3'- cAGCCC--AgCGGCGAGCGUCG--GCUC-UG- -5' |
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| 18564 | 5' | -61.8 | NC_004682.1 | + | 27099 | 0.71 | 0.157467 |
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Target: 5'- -cCGaGGUCugGCCGCUcaaacggugagacCGUGGCCGAGACa -3' miRNA: 3'- caGC-CCAG--CGGCGA-------------GCGUCGGCUCUG- -5' |
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| 18564 | 5' | -61.8 | NC_004682.1 | + | 49390 | 0.74 | 0.097128 |
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Target: 5'- -aCGGGcUCGCCGCUgGC-GUCGAGAUu -3' miRNA: 3'- caGCCC-AGCGGCGAgCGuCGGCUCUG- -5' |
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| 18564 | 5' | -61.8 | NC_004682.1 | + | 35928 | 1.09 | 0.0002 |
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Target: 5'- cGUCGGGUCGCCGCUCGCAGCCGAGACg -3' miRNA: 3'- -CAGCCCAGCGGCGAGCGUCGGCUCUG- -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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