miRNA: 3'- aGGCGU--UGGUGCGCAG--------------CGGGu---GCCUG- -5'
miRNA: 3'- agGCGUUGGuGCGCa---GCGGGuGCCUG- -5'
miRNA: 3'- agGCGUUGGuGCGC------AGCG---GGUGCCUG- -5'
Results 41 - 43 of 43 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 | |||||||
| 22893 | 3' | -59.8 | NC_005137.2 | + | 122499 | 0.69 | 0.519266 |
|
Target: 5'- aCUGCGucGCCGCGCGUCuuuuucacgugcaaGCCUgcauCGGGCa -3' miRNA: 3'- aGGCGU--UGGUGCGCAG--------------CGGGu---GCCUG- -5' |
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| 22893 | 3' | -59.8 | NC_005137.2 | + | 130382 | 0.68 | 0.580892 |
|
Target: 5'- -gCGCAACC-CGUGgaacCGCCUuCGGACc -3' miRNA: 3'- agGCGUUGGuGCGCa---GCGGGuGCCUG- -5' |
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| 22893 | 3' | -59.8 | NC_005137.2 | + | 130864 | 0.67 | 0.670882 |
|
Target: 5'- -gCGCAGCC-CGCGccugaaUUGUacgCCGCGGACg -3' miRNA: 3'- agGCGUUGGuGCGC------AGCG---GGUGCCUG- -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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