miRNA: 3'- gCCCCACC-UCgaCCCGCGGGauauuu -5'
miRNA: 3'- gCCCCa--CCUCGACCCG----------CGGgaUAUUU- -5'
miRNA: 3'- gCCCCACCuCgaCCCGCGGGauauuu -5'
miRNA: 3'- -GCCCCACCUCGa--CCCG-----------CGGGAuauuu -5'
miRNA: 3'- -GCCCCA---CCUCga-CCCGCGGGAuauuu -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
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| Predicted miRNA align pattern | |||||||
| 29547 | 3' | -59.2 | NC_006151.1 | + | 75317 | 0.7 | 0.509195 |
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Target: 5'- aGGGGUGGcAGa-GGGUGCCCa----- -3' miRNA: 3'- gCCCCACC-UCgaCCCGCGGGauauuu -5' |
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| 29547 | 3' | -59.2 | NC_006151.1 | + | 27549 | 0.7 | 0.509195 |
|
Target: 5'- gGGGGgggGGGGCUGGGCugggacggggGCCggGUGGGu -3' miRNA: 3'- gCCCCa--CCUCGACCCG----------CGGgaUAUUU- -5' |
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| 29547 | 3' | -59.2 | NC_006151.1 | + | 20622 | 0.71 | 0.416788 |
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Target: 5'- uGGGGUGGuGg-GGGCGCCCc----- -3' miRNA: 3'- gCCCCACCuCgaCCCGCGGGauauuu -5' |
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| 29547 | 3' | -59.2 | NC_006151.1 | + | 11809 | 0.72 | 0.391113 |
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Target: 5'- gCGGGGUGGGGUgggGGGCggcggcggcucGCCCUc---- -3' miRNA: 3'- -GCCCCACCUCGa--CCCG-----------CGGGAuauuu -5' |
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| 29547 | 3' | -59.2 | NC_006151.1 | + | 44850 | 0.72 | 0.366491 |
|
Target: 5'- gCGGGGUcguGGAGgggGGGCGCCCUc---- -3' miRNA: 3'- -GCCCCA---CCUCga-CCCGCGGGAuauuu -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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