miRNA: 3'- uUGUUCGAcCGg-CGacu-CUAGCCAGG- -5'
miRNA: 3'- -UUGU-------UCgaCCGGCGACUCUAgccAGG- -5'
miRNA: 3'- uUGUUCGACCGG---------CGACUCUAGCcaGG- -5'
miRNA: 3'- uuGUUCGaCcGGCGACU-CUAgCCAGG- -5'
miRNA: 3'- -UUGUUCGACCGGCGACUCUAGCCAGG- -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 | |||||||
| 18026 | 5' | -55.9 | NC_004665.1 | + | 28968 | 0.66 | 0.562317 |
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Target: 5'- cACGGGCUuGCagGCgacuGGUCGGUCCa -3' miRNA: 3'- uUGUUCGAcCGg-CGacu-CUAGCCAGG- -5' |
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| 18026 | 5' | -55.9 | NC_004665.1 | + | 10468 | 0.66 | 0.538927 |
|
Target: 5'- gGGCAgccucucAGgaGGCCGCUGAGGUac-UCCc -3' miRNA: 3'- -UUGU-------UCgaCCGGCGACUCUAgccAGG- -5' |
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| 18026 | 5' | -55.9 | NC_004665.1 | + | 2772 | 0.67 | 0.444329 |
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Target: 5'- uACAAGCUGGUCucggaugagGUUGAGAUCGc-CCu -3' miRNA: 3'- uUGUUCGACCGG---------CGACUCUAGCcaGG- -5' |
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| 18026 | 5' | -55.9 | NC_004665.1 | + | 23770 | 0.71 | 0.278262 |
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Target: 5'- -uCAAGCaGaCCGCUGAcGAUgGGUCCa -3' miRNA: 3'- uuGUUCGaCcGGCGACU-CUAgCCAGG- -5' |
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| 18026 | 5' | -55.9 | NC_004665.1 | + | 29104 | 1.09 | 0.00043 |
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Target: 5'- cAACAAGCUGGCCGCUGAGAUCGGUCCu -3' miRNA: 3'- -UUGUUCGACCGGCGACUCUAGCCAGG- -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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