miRNA: 3'- ggAACCGGACGcGCUAGAgGCGcCUC- -5'
miRNA: 3'- -GGAACCGgaCGCGCUa----GAGGc---GCCUC- -5'
miRNA: 3'- ggaACCGGA---CGCGcu-AGAGgCGCCUC- -5'
miRNA: 3'- -GGAACCGGACGCGCUAGAGGCGCCUC- -5'
Results 1 - 4 of 4 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 | |||||||
| 19567 | 3' | -58.9 | NC_004686.1 | + | 4579 | 0.66 | 0.56582 |
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Target: 5'- -gUUGGCCUGCuCGAUCU-CGUcGAGc -3' miRNA: 3'- ggAACCGGACGcGCUAGAgGCGcCUC- -5' |
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| 19567 | 3' | -58.9 | NC_004686.1 | + | 42158 | 0.67 | 0.493863 |
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Target: 5'- uCCUUGGCg-GCGCGGacuugCUCCauaaUGGAGg -3' miRNA: 3'- -GGAACCGgaCGCGCUa----GAGGc---GCCUC- -5' |
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| 19567 | 3' | -58.9 | NC_004686.1 | + | 48451 | 0.71 | 0.267352 |
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Target: 5'- --cUGGCCUucgGCGCuguUCUCgGCGGAGa -3' miRNA: 3'- ggaACCGGA---CGCGcu-AGAGgCGCCUC- -5' |
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| 19567 | 3' | -58.9 | NC_004686.1 | + | 8874 | 1.11 | 0.000382 |
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Target: 5'- gCCUUGGCCUGCGCGAUCUCCGCGGAGg -3' miRNA: 3'- -GGAACCGGACGCGCUAGAGGCGCCUC- -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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