miRNA: 3'- guaaugGGCAC-Ga-------CGGUGUAGGUCGu -5'
miRNA: 3'- guaAUGG-GCA-CGACG-GUGUAGGUCGu -5'
miRNA: 3'- -GUaaUGGGcaCGAcGGUGUAGGUCGu -5'
miRNA: 3'- guaAUGGGCACG---------ACGGUGUAGGUCGU- -5'
miRNA: 3'- -GUAAUGGGCACGACGGUGUAGGUCGU- -5'
Results 1 - 5 of 5 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# |
P value
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| Predicted miRNA align pattern | |||||||
| 17346 | 5' | -54.2 | NC_004367.1 | + | 112398 | 0.66 | 0.920129 |
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Target: 5'- -----aCCGUGaCgccuuaaaGCCGCAUCCAGCu -3' miRNA: 3'- guaaugGGCAC-Ga-------CGGUGUAGGUCGu -5' |
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| 17346 | 5' | -54.2 | NC_004367.1 | + | 77189 | 0.67 | 0.908086 |
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Target: 5'- --cUACCaCGUaGUUGCaCAUAUCCAGUu -3' miRNA: 3'- guaAUGG-GCA-CGACG-GUGUAGGUCGu -5' |
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| 17346 | 5' | -54.2 | NC_004367.1 | + | 69935 | 0.67 | 0.901691 |
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Target: 5'- aCAcgGCCCa-GCU-CCACAUCCGGCc -3' miRNA: 3'- -GUaaUGGGcaCGAcGGUGUAGGUCGu -5' |
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| 17346 | 5' | -54.2 | NC_004367.1 | + | 117975 | 0.71 | 0.699386 |
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Target: 5'- --aUGCCUGUGCacuuuauucUGUCAUGUCUAGCAa -3' miRNA: 3'- guaAUGGGCACG---------ACGGUGUAGGUCGU- -5' |
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| 17346 | 5' | -54.2 | NC_004367.1 | + | 1519 | 1.09 | 0.003726 |
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Target: 5'- aCAUUACCCGUGCUGCCACAUCCAGCAc -3' miRNA: 3'- -GUAAUGGGCACGACGGUGUAGGUCGU- -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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