miRNA: 3'- -UGCG-ACUGGGCUGGcCGGgaUUCAGC- -5'
miRNA: 3'- ugcGACUGGGCUGGCC-GGGAuUCAGC- -5'
miRNA: 3'- ugCGAcuGGgCUGGCCGGGauuCAGC- -5'
miRNA: 3'- -UGCGacUGGGCUGGCCGGGAu-----UCaGC- -5'
miRNA: 3'- -UGCGa-------CUGGG----CUGGCCGGG--AUUCAGc -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 | |||||||
| 8223 | 3' | -59 | NC_001978.2 | + | 5097 | 0.66 | 0.429667 |
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Target: 5'- cGCGCuUGAUCCGGCC-GUCa-AAGUCGg -3' miRNA: 3'- -UGCG-ACUGGGCUGGcCGGgaUUCAGC- -5' |
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| 8223 | 3' | -59 | NC_001978.2 | + | 22978 | 0.66 | 0.448902 |
|
Target: 5'- --aUUGGUCCGGCCGGaCCCU-AGUCGc -3' miRNA: 3'- ugcGACUGGGCUGGCC-GGGAuUCAGC- -5' |
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| 8223 | 3' | -59 | NC_001978.2 | + | 22350 | 0.66 | 0.458696 |
|
Target: 5'- -gGCUucCCgGACCGGUCCggcGUCGg -3' miRNA: 3'- ugCGAcuGGgCUGGCCGGGauuCAGC- -5' |
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| 8223 | 3' | -59 | NC_001978.2 | + | 17183 | 0.66 | 0.458696 |
|
Target: 5'- aAUGUccGCCCGACCGGCCUUcgugauAGcCGa -3' miRNA: 3'- -UGCGacUGGGCUGGCCGGGAu-----UCaGC- -5' |
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| 8223 | 3' | -59 | NC_001978.2 | + | 29486 | 0.73 | 0.166385 |
|
Target: 5'- gGCGCcauacagcGACCCccagGACCGGCCCccUAGGUCa -3' miRNA: 3'- -UGCGa-------CUGGG----CUGGCCGGG--AUUCAGc -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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