miRNA: 3'- gaGAAGga-ACCACgGGAACCAGG--UGG- -5'
miRNA: 3'- gagaaGGAACCACGGGAAccAG-GUGG- -5'
miRNA: 3'- -GAGAAGgaacCACGGGaaCCAGGuGG- -5'
miRNA: 3'- -GAGaa---GGAACCACgGGAaccAGGUGG- -5'
miRNA: 3'- -GAGAAGGAACCACGGGAACCAGGUGG- -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 | |||||||
| 1504 | 3' | -54.5 | NC_001335.1 | + | 43579 | 0.66 | 0.761089 |
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Target: 5'- -aCUUCgagUGGUGgUUUUGGUCCggGCCg -3' miRNA: 3'- gaGAAGga-ACCACgGGAACCAGG--UGG- -5' |
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| 1504 | 3' | -54.5 | NC_001335.1 | + | 35191 | 0.66 | 0.761089 |
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Target: 5'- ----aCCUUGGUGCCCUUcuUCaUGCCg -3' miRNA: 3'- gagaaGGAACCACGGGAAccAG-GUGG- -5' |
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| 1504 | 3' | -54.5 | NC_001335.1 | + | 14826 | 0.66 | 0.750683 |
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Target: 5'- cCUCUUCaac-GUGCCCgaGGUUC-CCg -3' miRNA: 3'- -GAGAAGgaacCACGGGaaCCAGGuGG- -5' |
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| 1504 | 3' | -54.5 | NC_001335.1 | + | 5748 | 0.67 | 0.675058 |
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Target: 5'- gCUCgacgcCCUUGGUGaCCUga-UCCACCg -3' miRNA: 3'- -GAGaa---GGAACCACgGGAaccAGGUGG- -5' |
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| 1504 | 3' | -54.5 | NC_001335.1 | + | 36825 | 1.13 | 0.000552 |
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Target: 5'- aCUCUUCCUUGGUGCCCUUGGUCCACCg -3' miRNA: 3'- -GAGAAGGAACCACGGGAACCAGGUGG- -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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