miRNA: 3'- -GAGCGGaCGGcAGCGA-UGCUGGgCUu -5'
miRNA: 3'- -GAGCGGa-----------CGGCA--GCGAUGCUG-GGCUU- -5'
miRNA: 3'- gaGCGG-ACGGCaGCGAUGCUGgGCUU- -5'
miRNA: 3'- -GAGCGGACGGCAGCGAUGCUGGGCUU- -5'
Results 41 - 44 of 44 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 | |||||||
| 25558 | 5' | -59.5 | NC_005337.1 | + | 15869 | 0.69 | 0.539463 |
|
Target: 5'- gCUCGCCgGCC-UCGCUcAUGACCgGGu -3' miRNA: 3'- -GAGCGGaCGGcAGCGA-UGCUGGgCUu -5' |
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| 25558 | 5' | -59.5 | NC_005337.1 | + | 95326 | 0.69 | 0.547335 |
|
Target: 5'- gCUCGUCgucgguuagcgcGCCGUggCGCUGCGACaCCGGGg -3' miRNA: 3'- -GAGCGGa-----------CGGCA--GCGAUGCUG-GGCUU- -5' |
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| 25558 | 5' | -59.5 | NC_005337.1 | + | 10824 | 0.69 | 0.549309 |
|
Target: 5'- -aUGCCgUGCUGgCGCUGCGGCgCGGAg -3' miRNA: 3'- gaGCGG-ACGGCaGCGAUGCUGgGCUU- -5' |
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| 25558 | 5' | -59.5 | NC_005337.1 | + | 103379 | 1.06 | 0.001934 |
|
Target: 5'- gCUCGCCUGCCGUCGCUACGACCCGAAg -3' miRNA: 3'- -GAGCGGACGGCAGCGAUGCUGGGCUU- -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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