miRNA: 3'- -UUGUCGC---AGa-CGCCGCACGU-CGGCUA- -5'
miRNA: 3'- uugUC-GCAGACGCCG-------CACGUCGGCua -5'
miRNA: 3'- -UUGUCGCaGACG----CCGCACGU-CGGCua -5'
miRNA: 3'- uuguCGCaGACGCcGCACGUCGGCUa -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 | |||||||
| 12248 | 3' | -59.9 | NC_003309.1 | + | 29600 | 0.68 | 0.285012 |
|
Target: 5'- aAACGGUGgauUCgaGCGGCGUGCGgGUCGAUu -3' miRNA: 3'- -UUGUCGC---AGa-CGCCGCACGU-CGGCUA- -5' |
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| 12248 | 3' | -59.9 | NC_003309.1 | + | 13502 | 0.69 | 0.263512 |
|
Target: 5'- --aGGcCGUCUGCGGCccgcuggGUGUAGCCGu- -3' miRNA: 3'- uugUC-GCAGACGCCG-------CACGUCGGCua -5' |
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| 12248 | 3' | -59.9 | NC_003309.1 | + | 32760 | 0.69 | 0.257522 |
|
Target: 5'- gGACAGCG-CUGCagcaGGCGUGCGcGCUGu- -3' miRNA: 3'- -UUGUCGCaGACG----CCGCACGU-CGGCua -5' |
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| 12248 | 3' | -59.9 | NC_003309.1 | + | 18540 | 0.73 | 0.135452 |
|
Target: 5'- ---uGCGcCUGCGaCGUGCAGCCGAa -3' miRNA: 3'- uuguCGCaGACGCcGCACGUCGGCUa -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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