miRNA: 3'- gUGCGAGucuuaGACC-AGC-AGCGAGU- -5'
miRNA: 3'- -GUGCGAGUC----UUAGaCCAGc------AGCGAGU- -5'
miRNA: 3'- -GugCGAGUCUuAGACCaGCAGCGagu -5'
miRNA: 3'- -GUGCGAGUCUUAGACCAGCAGCGAGU- -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 | |||||||
| 18300 | 5' | -53.2 | NC_004681.1 | + | 3248 | 0.66 | 0.871666 |
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Target: 5'- uGCGCUCuuc--CUGGcUCGcUCGCUCGg -3' miRNA: 3'- gUGCGAGucuuaGACC-AGC-AGCGAGU- -5' |
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| 18300 | 5' | -53.2 | NC_004681.1 | + | 36865 | 0.7 | 0.65595 |
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Target: 5'- aCGCGCUCGGcguuGAUCaGGUCuauugcaUCGCUCAg -3' miRNA: 3'- -GUGCGAGUC----UUAGaCCAGc------AGCGAGU- -5' |
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| 18300 | 5' | -53.2 | NC_004681.1 | + | 9110 | 0.71 | 0.634076 |
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Target: 5'- gCugGCUCGGGcUCUGG-CGUUGCg-- -3' miRNA: 3'- -GugCGAGUCUuAGACCaGCAGCGagu -5' |
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| 18300 | 5' | -53.2 | NC_004681.1 | + | 32058 | 1.09 | 0.002539 |
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Target: 5'- uCACGCUCAGAAUCUGGUCGUCGCUCAg -3' miRNA: 3'- -GUGCGAGUCUUAGACCAGCAGCGAGU- -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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