miRNA: 3'- gAAGUUGguUUC-CUuCAACCAGuaCG- -5'
miRNA: 3'- gaaGUUGguuUCCUU-CAACCAG-UACG- -5'
miRNA: 3'- gaaGUUGGUU----UCCU--------UCAa------CCAGUACG- -5'
miRNA: 3'- gaAGUUGGuUUCCU--UCAa--------------CCAGUACG- -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 |
| Predicted miRNA align pattern | |||||||
| 30936 | 5' | -45.2 | NC_006552.1 | + | 19668 | 0.72 | 0.943111 |
|
Target: 5'- uUUCGGCguAAGcGAuGUUGGUCcgGCu -3' miRNA: 3'- gAAGUUGguUUC-CUuCAACCAGuaCG- -5' |
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| 30936 | 5' | -45.2 | NC_006552.1 | + | 24820 | 0.67 | 0.996315 |
|
Target: 5'- --aCAGCau-GGGGAuGUUGGUCuGUGCc -3' miRNA: 3'- gaaGUUGguuUCCUU-CAACCAG-UACG- -5' |
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| 30936 | 5' | -45.2 | NC_006552.1 | + | 53771 | 0.67 | 0.997901 |
|
Target: 5'- --cCGGCCAGcagcAGGAgcgcaccgAGUggcaccgGGUCGUGCu -3' miRNA: 3'- gaaGUUGGUU----UCCU--------UCAa------CCAGUACG- -5' |
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| 30936 | 5' | -45.2 | NC_006552.1 | + | 7404 | 0.66 | 0.998631 |
|
Target: 5'- -cUCAGCC-AGGGAaaAGUcacuuggaccggcugGGUCAUGUu -3' miRNA: 3'- gaAGUUGGuUUCCU--UCAa--------------CCAGUACG- -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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