miRNA: 3'- -GCUAGU---ACGCCuucGUGCGuu-UCGAC- -5'
miRNA: 3'- -GCUAGUaCGCC-UUCGugCGu-----UUCGac -5'
miRNA: 3'- -GCUAGUACG------------CCUUCGUgCGUUuCGac -5'
miRNA: 3'- gCUAGUa------CGCC-----UUCGugCGUUUCGAc -5'
miRNA: 3'- gCUaGUAC-GCCuuCGUGCGUuuCGac -5'
Results 21 - 25 of 25 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 | |||||||
| 13000 | 3' | -51.3 | NC_003387.1 | + | 22939 | 0.68 | 0.794969 |
|
Target: 5'- uCGAUCGgcaUGCGGu--CACGCcguAGCUGa -3' miRNA: 3'- -GCUAGU---ACGCCuucGUGCGuu-UCGAC- -5' |
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| 13000 | 3' | -51.3 | NC_003387.1 | + | 3943 | 0.68 | 0.763837 |
|
Target: 5'- gCGAUCA-GCGGcGAGCugGCugcgccGAGCa- -3' miRNA: 3'- -GCUAGUaCGCC-UUCGugCGu-----UUCGac -5' |
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| 13000 | 3' | -51.3 | NC_003387.1 | + | 8915 | 0.69 | 0.720337 |
|
Target: 5'- cCGAUCGUGCagcacucgucgaGGAAGCGgGCGAcGCc- -3' miRNA: 3'- -GCUAGUACG------------CCUUCGUgCGUUuCGac -5' |
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| 13000 | 3' | -51.3 | NC_003387.1 | + | 41868 | 0.71 | 0.595271 |
|
Target: 5'- aGAUCGgcagaccGCGGucggcGAGCugGCGAAGCUc -3' miRNA: 3'- gCUAGUa------CGCC-----UUCGugCGUUUCGAc -5' |
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| 13000 | 3' | -51.3 | NC_003387.1 | + | 52489 | 0.66 | 0.869058 |
|
Target: 5'- uGAgCAUGuCGGggGCGCGCAu-GUc- -3' miRNA: 3'- gCUaGUAC-GCCuuCGUGCGUuuCGac -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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