miRNA: 3'- -GC-GCUA-CC-GCUGGUcCUGA--GCCAGCC- -5'
miRNA: 3'- -GCGCU-ACCGcUGGUCCUG-AGCcaGCC- -5'
miRNA: 3'- gCGCuaCCGCUg--GUCCUgAGCCAGcc -5'
miRNA: 3'- gCGCU---AC---CGCUGGUCCUGAG-------------CCAGCc -5'
miRNA: 3'- -GCGCUaCC-GCUGGUCCUGAGCCAGCC- -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 | |||||||
| 16298 | 5' | -58.3 | NC_004084.1 | + | 48904 | 0.68 | 0.508674 |
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Target: 5'- cCGuCGGUcGGuCGGCCAcGACUucCGGUCGGc -3' miRNA: 3'- -GC-GCUA-CC-GCUGGUcCUGA--GCCAGCC- -5' |
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| 16298 | 5' | -58.3 | NC_004084.1 | + | 5135 | 0.67 | 0.549333 |
|
Target: 5'- uCGCGGcUGGUcGCCAGGACgUCGccCGGc -3' miRNA: 3'- -GCGCU-ACCGcUGGUCCUG-AGCcaGCC- -5' |
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| 16298 | 5' | -58.3 | NC_004084.1 | + | 41330 | 0.66 | 0.622513 |
|
Target: 5'- aGCGcgGGUGAgaaUGGGAgUCGGUCu- -3' miRNA: 3'- gCGCuaCCGCUg--GUCCUgAGCCAGcc -5' |
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| 16298 | 5' | -58.3 | NC_004084.1 | + | 7887 | 0.66 | 0.642556 |
|
Target: 5'- gGCGAagcUGcucGCGAUCGGGGCUCucgacguuccacgGGUCGa -3' miRNA: 3'- gCGCU---AC---CGCUGGUCCUGAG-------------CCAGCc -5' |
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| 16298 | 5' | -58.3 | NC_004084.1 | + | 35438 | 0.94 | 0.008546 |
|
Target: 5'- uCGCGA-GGuCGACCAGGACUCGGUCGGc -3' miRNA: 3'- -GCGCUaCC-GCUGGUCCUGAGCCAGCC- -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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