miRNA: 3'- -GCGGGuAGU-CUGGGaGCGGCaGAcGC- -5'
miRNA: 3'- -GCGGGUAGUCUGGGAGCGGCAGACGC- -5'
miRNA: 3'- -GCGGG--UAG-UCUGggAGCGGCAGaCGC- -5'
miRNA: 3'- -GCGG------GUAGuCUGGGa--GCGGCAG-ACGc -5'
miRNA: 3'- gCGGGUAGUCUGGGA-----GCG-GCaGaCGC- -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 | |||||||
| 28007 | 3' | -59.8 | NC_005887.1 | + | 36525 | 0.66 | 0.428947 |
|
Target: 5'- uCGCCCuUCGcGACCCgCGCCGaCU-CGa -3' miRNA: 3'- -GCGGGuAGU-CUGGGaGCGGCaGAcGC- -5' |
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| 28007 | 3' | -59.8 | NC_005887.1 | + | 37668 | 1.08 | 0.000354 |
|
Target: 5'- gCGCCCAUCAGACCCUCGCCGUCUGCGc -3' miRNA: 3'- -GCGGGUAGUCUGGGAGCGGCAGACGC- -5' |
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| 28007 | 3' | -59.8 | NC_005887.1 | + | 40741 | 0.66 | 0.40123 |
|
Target: 5'- cCGCCCgcGUCgAGGCgaUCGCCGUUgGCGc -3' miRNA: 3'- -GCGGG--UAG-UCUGggAGCGGCAGaCGC- -5' |
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| 28007 | 3' | -59.8 | NC_005887.1 | + | 41191 | 0.66 | 0.438434 |
|
Target: 5'- cCGCCuggcugCAUCcGACCCgcgCGUCGUCgUGCc -3' miRNA: 3'- -GCGG------GUAGuCUGGGa--GCGGCAG-ACGc -5' |
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| 28007 | 3' | -59.8 | NC_005887.1 | + | 41201 | 0.68 | 0.325255 |
|
Target: 5'- gGCCCGUCAGAUCCUucacgCGCaCG-C-GCGg -3' miRNA: 3'- gCGGGUAGUCUGGGA-----GCG-GCaGaCGC- -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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