miRNA: 3'- caucCGGUaCGGAUCUCCCGcGUGGC- -5'
miRNA: 3'- caUCCG--GUACGGaUCUCCCGCG--UGGc -5'
miRNA: 3'- caUCCGG-UACGG-AUC-UCCCG-------CGUGGc -5'
miRNA: 3'- caUCCGGUaCGGA---UCUCCCGCGUgGC- -5'
miRNA: 3'- caUCCGgUACGGa-UCUCCCgCGUGgc -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 | |||||||
| 13468 | 5' | -59.3 | NC_003409.1 | + | 12013 | 0.68 | 0.621182 |
|
Target: 5'- ---aGCCA-GCCUGGAGGGCcUGCUGg -3' miRNA: 3'- caucCGGUaCGGAUCUCCCGcGUGGC- -5' |
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| 13468 | 5' | -59.3 | NC_003409.1 | + | 111157 | 0.68 | 0.580585 |
|
Target: 5'- -cGGGUugCGUGUCgGGAGGGCGCcgGCCu -3' miRNA: 3'- caUCCG--GUACGGaUCUCCCGCG--UGGc -5' |
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| 13468 | 5' | -59.3 | NC_003409.1 | + | 100081 | 0.68 | 0.569505 |
|
Target: 5'- -cGGGCCaAUGCCaUGGcGGGGCggcugugGCACCa -3' miRNA: 3'- caUCCGG-UACGG-AUC-UCCCG-------CGUGGc -5' |
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| 13468 | 5' | -59.3 | NC_003409.1 | + | 40592 | 0.7 | 0.491951 |
|
Target: 5'- -aAGGCUA-GUCUaguAGAGGGCGCGgCGc -3' miRNA: 3'- caUCCGGUaCGGA---UCUCCCGCGUgGC- -5' |
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| 13468 | 5' | -59.3 | NC_003409.1 | + | 73970 | 0.66 | 0.74165 |
|
Target: 5'- -gGGGUgGUGUCgaAGAGGGgGCACa- -3' miRNA: 3'- caUCCGgUACGGa-UCUCCCgCGUGgc -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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