miRNA: 3'- -CAGCUCCGaGUGGgGCG-GAGGAAaga -5'
miRNA: 3'- caGCU-CCGaGUGG-GGCGGAGGaaaga -5'
miRNA: 3'- caGCUcCGAGUGGGGCGGAGGaa-AGa -5'
miRNA: 3'- cAGCUCCG-AGUGGGGc------GGAGGAAaga -5'
miRNA: 3'- -CAGCUCCGAGUGGGGCGGAGGAAAGA- -5'
Results 1 - 5 of 5 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 | |||||||
| 7168 | 5' | -58.3 | NC_001900.1 | + | 34023 | 0.66 | 0.516533 |
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Target: 5'- uGUCGGGGC-CACCgUGCgCUUCUUg-- -3' miRNA: 3'- -CAGCUCCGaGUGGgGCG-GAGGAAaga -5' |
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| 7168 | 5' | -58.3 | NC_001900.1 | + | 47897 | 0.67 | 0.46545 |
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Target: 5'- -cCGGcGGCcCACCgCCGCCUCCa---- -3' miRNA: 3'- caGCU-CCGaGUGG-GGCGGAGGaaaga -5' |
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| 7168 | 5' | -58.3 | NC_001900.1 | + | 7398 | 0.68 | 0.389627 |
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Target: 5'- -cCGGaGCUUGCCCCGUCUCCgccUCa -3' miRNA: 3'- caGCUcCGAGUGGGGCGGAGGaa-AGa -5' |
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| 7168 | 5' | -58.3 | NC_001900.1 | + | 34526 | 0.7 | 0.284915 |
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Target: 5'- cUCGGGGCaUCGCCCCcauguguCCUCCUUa-- -3' miRNA: 3'- cAGCUCCG-AGUGGGGc------GGAGGAAaga -5' |
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| 7168 | 5' | -58.3 | NC_001900.1 | + | 41700 | 1.06 | 0.00063 |
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Target: 5'- uGUCGAGGCUCACCCCGCCUCCUUUCUc -3' miRNA: 3'- -CAGCUCCGAGUGGGGCGGAGGAAAGA- -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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