miRNA: 3'- ccaCGA-GUUGg----------UGGUCGAGGUGUAGc -5'
miRNA: 3'- -CCACgaGUUgG---UGGUCGAGGUGuaGC- -5'
miRNA: 3'- -CCACGAG--------UUGgUGGUcgAGGUGUAGC- -5'
miRNA: 3'- -CCACGaguUGGUGGUCGa---GGU-GUAgC- -5'
miRNA: 3'- -CCACGAGUUGGUGGUCGAGGUGUAGC- -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 | |||||||
| 2728 | 3' | -53.9 | NC_001491.2 | + | 58422 | 0.68 | 0.913559 |
|
Target: 5'- --cGCUgCAGCaccucugggcaGCCGGCUCUACAUCu -3' miRNA: 3'- ccaCGA-GUUGg----------UGGUCGAGGUGUAGc -5' |
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| 2728 | 3' | -53.9 | NC_001491.2 | + | 19181 | 0.68 | 0.907463 |
|
Target: 5'- uGGUGgaUGAgCgugACCAGCUCCACggCGg -3' miRNA: 3'- -CCACgaGUUgG---UGGUCGAGGUGuaGC- -5' |
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| 2728 | 3' | -53.9 | NC_001491.2 | + | 50885 | 0.68 | 0.901124 |
|
Target: 5'- uGGUGCUUcgucucuuGGCgGCCGa-UCCACAUCGa -3' miRNA: 3'- -CCACGAG--------UUGgUGGUcgAGGUGUAGC- -5' |
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| 2728 | 3' | -53.9 | NC_001491.2 | + | 101674 | 0.68 | 0.901124 |
|
Target: 5'- aGGUGC---ACCGCCAGCguggCCAuCAUgGa -3' miRNA: 3'- -CCACGaguUGGUGGUCGa---GGU-GUAgC- -5' |
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| 2728 | 3' | -53.9 | NC_001491.2 | + | 148924 | 1.1 | 0.0037 |
|
Target: 5'- gGGUGCUCAACCACCAGCUCCACAUCGc -3' miRNA: 3'- -CCACGAGUUGGUGGUCGAGGUGUAGC- -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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