miRNA: 3'- -CGGAAAGCGugACCGUaGGugCGgCG- -5'
miRNA: 3'- -CGGaa--AGCGuGA-CCGUaGGUGCG-GCG- -5'
miRNA: 3'- -CGGA---------AAGCGUGaCCGuAGGu----GCGGCG- -5'
miRNA: 3'- cGGAAAGCG-----UGa-CCGUAGG-----UGCGGCG- -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 | |||||||
| 22400 | 3' | -55.7 | NC_005056.1 | + | 13260 | 0.69 | 0.357591 |
|
Target: 5'- gGUCUUUUGUugUGGUAcUCugGCgGCu -3' miRNA: 3'- -CGGAAAGCGugACCGUaGGugCGgCG- -5' |
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| 22400 | 3' | -55.7 | NC_005056.1 | + | 1352 | 0.67 | 0.473667 |
|
Target: 5'- cGCCgaccUCGC-CUgGGCGaCCAUGCaCGCc -3' miRNA: 3'- -CGGaa--AGCGuGA-CCGUaGGUGCG-GCG- -5' |
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| 22400 | 3' | -55.7 | NC_005056.1 | + | 27547 | 0.67 | 0.484191 |
|
Target: 5'- uGCCUgaaaacgguUUCGCGC-GGC-UCCucuuuCGUCGCc -3' miRNA: 3'- -CGGA---------AAGCGUGaCCGuAGGu----GCGGCG- -5' |
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| 22400 | 3' | -55.7 | NC_005056.1 | + | 12405 | 0.67 | 0.494825 |
|
Target: 5'- aCCUUUUGCggucaGCgaGGCAUCCgggugACGUCGUg -3' miRNA: 3'- cGGAAAGCG-----UGa-CCGUAGG-----UGCGGCG- -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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