miRNA: 3'- -GAGGCag-----------UAGCgGGUCGAGUAGCUCG- -5'
miRNA: 3'- gaGGC---AGUAGCGGG------------UCGAGUAGCUCG- -5'
miRNA: 3'- -GAGGCAGUAGCGGGUCGAGUAGCUCG- -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
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| Predicted miRNA align pattern | |||||||
| 1444 | 5' | -55.6 | NC_001335.1 | + | 37473 | 0.73 | 0.327456 |
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Target: 5'- uCUCCGaugcgguguaguaGUCGaUCAGCUCAUCGAGCu -3' miRNA: 3'- -GAGGCag-----------UAGCgGGUCGAGUAGCUCG- -5' |
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| 1444 | 5' | -55.6 | NC_001335.1 | + | 28125 | 0.74 | 0.279365 |
|
Target: 5'- -gCCGaucUCGUUGCCCuccaggguuccaAGCUCGUUGAGCu -3' miRNA: 3'- gaGGC---AGUAGCGGG------------UCGAGUAGCUCG- -5' |
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| 1444 | 5' | -55.6 | NC_001335.1 | + | 6434 | 1.12 | 0.000563 |
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Target: 5'- aCUCCGUCAUCGCCCAGCUCAUCGAGCu -3' miRNA: 3'- -GAGGCAGUAGCGGGUCGAGUAGCUCG- -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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