miRNA: 3'- gUUCGGCCUCGUGGU-CccGGUCGAGG- -5'
miRNA: 3'- gUUCGG-CCUCGu----GGUCCCGgUCgAGG- -5'
miRNA: 3'- -GUUCg------GCCUCGUGGUCCCGGUCga--GG- -5'
miRNA: 3'- gUUCGGC-CUCGUGgUC-CCGGUCGAGg -5'
miRNA: 3'- -GUUCGGCCUCGUGGUCCCGGUCGAGG- -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
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| Predicted miRNA align pattern | |||||||
| 30694 | 3' | -60.8 | NC_006552.1 | + | 59284 | 0.71 | 0.218832 |
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Target: 5'- aAGGCCGGGGCAUCAcGccCCGGCUUCu -3' miRNA: 3'- gUUCGGCCUCGUGGU-CccGGUCGAGG- -5' |
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| 30694 | 3' | -60.8 | NC_006552.1 | + | 9928 | 0.72 | 0.197585 |
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Target: 5'- aAGGCCuGGGGCuucuuCCAGGGCgAG-UCCg -3' miRNA: 3'- gUUCGG-CCUCGu----GGUCCCGgUCgAGG- -5' |
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| 30694 | 3' | -60.8 | NC_006552.1 | + | 3019 | 0.79 | 0.056953 |
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Target: 5'- gCAAGaccgguaCGGGGCGCCAGGGCCAGaucaCCg -3' miRNA: 3'- -GUUCg------GCCUCGUGGUCCCGGUCga--GG- -5' |
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| 30694 | 3' | -60.8 | NC_006552.1 | + | 49601 | 0.8 | 0.049517 |
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Target: 5'- gAAGCCGcGAGCACgGGcGGCUAGCUCa -3' miRNA: 3'- gUUCGGC-CUCGUGgUC-CCGGUCGAGg -5' |
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| 30694 | 3' | -60.8 | NC_006552.1 | + | 3360 | 1.11 | 0.000221 |
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Target: 5'- cCAAGCCGGAGCACCAGGGCCAGCUCCg -3' miRNA: 3'- -GUUCGGCCUCGUGGUCCCGGUCGAGG- -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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