miRNA: 3'- aAgUUCG--GGCCuCGUAACUU-ACAGCC- -5'
miRNA: 3'- aaGUUCGGgCcUCGUAACU---UACAGcc -5'
miRNA: 3'- aagUUCGGgC-CUC-GUAACUUACAGCC- -5'
miRNA: 3'- aaGUUCGGGCCU---CGUAACUua------------CAGCC- -5'
miRNA: 3'- -AAGUUCGGGCCUCGUAACUUACAGCC- -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 | |||||||
| 19654 | 5' | -51.3 | NC_004686.1 | + | 17891 | 0.66 | 0.904813 |
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Target: 5'- gUgGAGUggCCGG-GUGUUGAGcUGUCGGg -3' miRNA: 3'- aAgUUCG--GGCCuCGUAACUU-ACAGCC- -5' |
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| 19654 | 5' | -51.3 | NC_004686.1 | + | 2582 | 0.66 | 0.897732 |
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Target: 5'- -aCGAGCCgGaAGCGUUGAuucAUGUCa- -3' miRNA: 3'- aaGUUCGGgCcUCGUAACU---UACAGcc -5' |
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| 19654 | 5' | -51.3 | NC_004686.1 | + | 42719 | 0.66 | 0.882715 |
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Target: 5'- --aAGGCCgGuGAGuUGUUGAAUGUUGGu -3' miRNA: 3'- aagUUCGGgC-CUC-GUAACUUACAGCC- -5' |
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| 19654 | 5' | -51.3 | NC_004686.1 | + | 3111 | 0.69 | 0.730034 |
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Target: 5'- -gCGAGCCCGGAugcGCAUUGGucugacaucaauggGUUGGc -3' miRNA: 3'- aaGUUCGGGCCU---CGUAACUua------------CAGCC- -5' |
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| 19654 | 5' | -51.3 | NC_004686.1 | + | 11679 | 1.09 | 0.002345 |
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Target: 5'- cUUCAAGCCCGGAGCAUUGAAUGUCGGa -3' miRNA: 3'- -AAGUUCGGGCCUCGUAACUUACAGCC- -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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