miRNA: 3'- aAGUGGGUGCcgcCCCAUCGC-GCCGC- -5'
miRNA: 3'- aAGUGgGUGCCGCcccaUCGCGCCGC- -5'
miRNA: 3'- aaGUGGgUGCCGC-C-CCau---CGCGCCGC- -5'
miRNA: 3'- aAGUGGGu---GCCGCCCcau-CGCGCCGC- -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 | |||||||
| 28171 | 5' | -63.4 | NC_005887.1 | + | 12316 | 0.68 | 0.190756 |
|
Target: 5'- cUCGCCUAUGa--GGGUGGCGuCGGCGc -3' miRNA: 3'- aAGUGGGUGCcgcCCCAUCGC-GCCGC- -5' |
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| 28171 | 5' | -63.4 | NC_005887.1 | + | 2199 | 0.66 | 0.252819 |
|
Target: 5'- cUCACaCGCGGCG----AGCGCGGCGc -3' miRNA: 3'- aAGUGgGUGCCGCcccaUCGCGCCGC- -5' |
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| 28171 | 5' | -63.4 | NC_005887.1 | + | 1480 | 0.69 | 0.167241 |
|
Target: 5'- -aCGCCgACGGCGuGcGGcgcucGCGCGGCGc -3' miRNA: 3'- aaGUGGgUGCCGC-C-CCau---CGCGCCGC- -5' |
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| 28171 | 5' | -63.4 | NC_005887.1 | + | 1219 | 0.72 | 0.087042 |
|
Target: 5'- aUCACCUuaucUGGCGGGcgcuGCGCGGCGc -3' miRNA: 3'- aAGUGGGu---GCCGCCCcau-CGCGCCGC- -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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