miRNA: 3'- gAGGCA--AGUAgGCGaa--------GACGCGCGag -5'
miRNA: 3'- gAGGCaa---GUAG------GCGAAGACGCGCGag -5'
miRNA: 3'- -GAGGCAAGuAG-GCGaagACG--CGCGAG- -5'
miRNA: 3'- gAGGCa-AGuAGGCGAaGaCGCGCGAG- -5'
Results 1 - 4 of 4 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 | |||||||
| 20903 | 5' | -55.5 | NC_004689.1 | + | 63147 | 0.66 | 0.732658 |
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Target: 5'- aUCCGUagUCAUaCGCggugcgauugCUGCGCGCa- -3' miRNA: 3'- gAGGCA--AGUAgGCGaa--------GACGCGCGag -5' |
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| 20903 | 5' | -55.5 | NC_004689.1 | + | 4465 | 0.67 | 0.722195 |
|
Target: 5'- uUCCGgcccaCGUUccacggCGCUUCUGCGUGCg- -3' miRNA: 3'- gAGGCaa---GUAG------GCGAAGACGCGCGag -5' |
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| 20903 | 5' | -55.5 | NC_004689.1 | + | 43162 | 0.67 | 0.679581 |
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Target: 5'- cCUCCGUUC-UCaCGCcaaUGUucGCGCUCg -3' miRNA: 3'- -GAGGCAAGuAG-GCGaagACG--CGCGAG- -5' |
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| 20903 | 5' | -55.5 | NC_004689.1 | + | 66263 | 0.67 | 0.679581 |
|
Target: 5'- gUCCGcgUCcUCCGCUcCgGCGUGUUCc -3' miRNA: 3'- gAGGCa-AGuAGGCGAaGaCGCGCGAG- -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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