miRNA: 3'- -GCCUAu-----------GCCGGCGGCuaG---------------GCCGCCGg -5'
miRNA: 3'- -GCCuaUGCCGGCGGCUAGg---CCGc---CGG- -5'
miRNA: 3'- -GCCU--AUGC---CGGCGGCua---GGC-CG--CCGG- -5'
miRNA: 3'- gccuaugccGGCGGCUAGGCCGCCGG- -5'
Results 21 - 24 of 24 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 | |||||||
| 12132 | 3' | -61.9 | NC_003309.1 | + | 45271 | 0.69 | 0.268211 |
|
Target: 5'- gCGGAUuuggucgaaugcCGGCCGCCGcgUgcgccucgaauacguCGGCGGCa -3' miRNA: 3'- -GCCUAu-----------GCCGGCGGCuaG---------------GCCGCCGg -5' |
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| 12132 | 3' | -61.9 | NC_003309.1 | + | 45864 | 0.72 | 0.157493 |
|
Target: 5'- gCGGcgACGGCCGUCGAUCacgaGGUucucGCCc -3' miRNA: 3'- -GCCuaUGCCGGCGGCUAGg---CCGc---CGG- -5' |
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| 12132 | 3' | -61.9 | NC_003309.1 | + | 46336 | 0.68 | 0.330067 |
|
Target: 5'- gCGGAcgUACGcguGCCGCCGuaccgCCGaGCacGGCCu -3' miRNA: 3'- -GCCU--AUGC---CGGCGGCua---GGC-CG--CCGG- -5' |
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| 12132 | 3' | -61.9 | NC_003309.1 | + | 49951 | 0.68 | 0.300718 |
|
Target: 5'- --------aCCGUCGAUUCGGCGGCCg -3' miRNA: 3'- gccuaugccGGCGGCUAGGCCGCCGG- -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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