miRNA: 3'- -GUUGUCGUU-CCGGua----AGCGGCc-CGGU- -5'
miRNA: 3'- gUUGUCGuu--------C-CGGUaaGCGGCCCGGU- -5'
miRNA: 3'- -GUUGUCGUucCGGUA-------------AGCGGCC--CGGu -5'
miRNA: 3'- -GUUGUCGUUCCGGUAAGCGGCCCGGU- -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 | |||||||
| 12472 | 3' | -57.4 | NC_003324.1 | + | 35038 | 0.67 | 0.483373 |
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Target: 5'- gCGGCAGCAGcGGCCugaucgUCGUCGcuGCCGg -3' miRNA: 3'- -GUUGUCGUU-CCGGua----AGCGGCc-CGGU- -5' |
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| 12472 | 3' | -57.4 | NC_003324.1 | + | 30665 | 0.67 | 0.483373 |
|
Target: 5'- aGAUAGCugcgcggaucGcGCCA--CGCCGGGCCAa -3' miRNA: 3'- gUUGUCGuu--------C-CGGUaaGCGGCCCGGU- -5' |
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| 12472 | 3' | -57.4 | NC_003324.1 | + | 32454 | 0.67 | 0.523783 |
|
Target: 5'- gCAACGGCA--GCCAUgcccucgucgccuUCGCCGGcaGCCu -3' miRNA: 3'- -GUUGUCGUucCGGUA-------------AGCGGCC--CGGu -5' |
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| 12472 | 3' | -57.4 | NC_003324.1 | + | 42657 | 1.08 | 0.000694 |
|
Target: 5'- gCAACAGCAAGGCCAUUCGCCGGGCCAc -3' miRNA: 3'- -GUUGUCGUUCCGGUAAGCGGCCCGGU- -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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