miRNA: 3'- cUGGCGaGGUGUGa-GUCGAaaauaUG- -5'
miRNA: 3'- cUGGCGA-GG-----UGUGAGUCGaaaa----UAUG- -5'
miRNA: 3'- -CUGGCGAGG----UGU-GAGUCGaaaau--AUG- -5'
miRNA: 3'- -CUGGCGAGGu-----GUGAGu--CGAaaaUAUG- -5'
miRNA: 3'- cUGGCGAGGUGU----GAGUCGaaaauaug -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 | |||||||
| 16233 | 5' | -48.9 | NC_004065.1 | + | 42640 | 0.66 | 0.99978 |
|
Target: 5'- cACCGCgCCGCGCgcCAGCUg----GCa -3' miRNA: 3'- cUGGCGaGGUGUGa-GUCGAaaauaUG- -5' |
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| 16233 | 5' | -48.9 | NC_004065.1 | + | 37776 | 0.68 | 0.996933 |
|
Target: 5'- uACCGCUaCCgacugGCACUCAGCgccagccaGUACa -3' miRNA: 3'- cUGGCGA-GG-----UGUGAGUCGaaaa----UAUG- -5' |
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| 16233 | 5' | -48.9 | NC_004065.1 | + | 16558 | 0.69 | 0.992301 |
|
Target: 5'- cGACCGCUCCgacuACAcCUCAGCccgagacUACg -3' miRNA: 3'- -CUGGCGAGG----UGU-GAGUCGaaaau--AUG- -5' |
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| 16233 | 5' | -48.9 | NC_004065.1 | + | 12646 | 0.69 | 0.994235 |
|
Target: 5'- aGGCCGCUCCuaucccCGCUCcucGCUg--AUGCu -3' miRNA: 3'- -CUGGCGAGGu-----GUGAGu--CGAaaaUAUG- -5' |
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| 16233 | 5' | -48.9 | NC_004065.1 | + | 1874 | 0.66 | 0.999449 |
|
Target: 5'- uGCCGUUCCACGgaguCUCGGCa------- -3' miRNA: 3'- cUGGCGAGGUGU----GAGUCGaaaauaug -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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