miRNA: 3'- aUCCUAUCGAauucUAUGUUaGAGUc -5'
miRNA: 3'- -AUCC----UAUCGAAUUCUAUGuuAGAGuc -5'
miRNA: 3'- aUCCUAUCGA---------AUUCUAUGU---------UAGAguC- -5'
miRNA: 3'- aUCCUAUCGAauucua-UGUuAGAGUC- -5'
miRNA: 3'- -AUCCUAUCGAAUUCUAUGUUAGAGUC- -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 | |||||||
| 9477 | 3' | -43.4 | NC_002531.1 | + | 56879 | 0.67 | 0.999996 |
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Target: 5'- cGGGGUAGCUgc--GUACAG-CUCAa -3' miRNA: 3'- aUCCUAUCGAauucUAUGUUaGAGUc -5' |
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| 9477 | 3' | -43.4 | NC_002531.1 | + | 28375 | 0.69 | 0.999852 |
|
Target: 5'- uUAGGuaugAUAGCUUAAGGUGC--UCUCu- -3' miRNA: 3'- -AUCC----UAUCGAAUUCUAUGuuAGAGuc -5' |
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| 9477 | 3' | -43.4 | NC_002531.1 | + | 37385 | 0.7 | 0.999673 |
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Target: 5'- gGGGAUGGCUggggcagguUGGGGUACAugcgggucgGUCUguGg -3' miRNA: 3'- aUCCUAUCGA---------AUUCUAUGU---------UAGAguC- -5' |
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| 9477 | 3' | -43.4 | NC_002531.1 | + | 102700 | 0.72 | 0.997058 |
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Target: 5'- cAGGAUGGCUguaauugGCAcUCUCAGg -3' miRNA: 3'- aUCCUAUCGAauucua-UGUuAGAGUC- -5' |
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| 9477 | 3' | -43.4 | NC_002531.1 | + | 28176 | 1.08 | 0.040526 |
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Target: 5'- gUAGGAUAGCUUAAGAUACAAUCUCAGu -3' miRNA: 3'- -AUCCUAUCGAAUUCUAUGUUAGAGUC- -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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