miRNA: 3'- guAGCUCGGCGCGcagCCAUAaaAGC- -5'
miRNA: 3'- -GUAGCU---CGG-CGC-GCAGCCAUAA---------AAGC- -5'
miRNA: 3'- -GUAGC-UCGGCGCGCAGCCauaaAAGC- -5'
miRNA: 3'- -GUAGCUCGGCGCGCAGCCAUAAAAGC- -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 | |||||||
| 27935 | 3' | -51.7 | NC_005886.2 | + | 16897 | 0.7 | 0.630444 |
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Target: 5'- -uUCGAGCCGUGUacaGGUGUcgUCGg -3' miRNA: 3'- guAGCUCGGCGCGcagCCAUAaaAGC- -5' |
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| 27935 | 3' | -51.7 | NC_005886.2 | + | 1513 | 0.73 | 0.476498 |
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Target: 5'- gCGUCGAuuuGCCgGCGuCGUCGGUAUUcaucucgaaUUCGg -3' miRNA: 3'- -GUAGCU---CGG-CGC-GCAGCCAUAA---------AAGC- -5' |
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| 27935 | 3' | -51.7 | NC_005886.2 | + | 25791 | 0.77 | 0.295242 |
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Target: 5'- gCAUCGcGGCCGCGUGUCGGcgcgUUUGg -3' miRNA: 3'- -GUAGC-UCGGCGCGCAGCCauaaAAGC- -5' |
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| 27935 | 3' | -51.7 | NC_005886.2 | + | 22138 | 1.1 | 0.001876 |
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Target: 5'- gCAUCGAGCCGCGCGUCGGUAUUUUCGg -3' miRNA: 3'- -GUAGCUCGGCGCGCAGCCAUAAAAGC- -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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