miRNA: 3'- gGGCCGU-------UCCUCCAUCCaguaCUCAC- -5'
miRNA: 3'- -GGGCCGUUCCUccaUCCa-GUACUCAC- -5'
miRNA: 3'- -GGGCCGUUCCUCCaUCCAgUACUcAC- -5'
miRNA: 3'- -GGGCCGUUCCUCCAUCCAGUACUCAC- -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 | |||||||
| 8844 | 3' | -54.7 | NC_002484.1 | + | 29034 | 0.68 | 0.654119 |
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Target: 5'- aUCGGCAagucuauGGGAGGUGGG----GAGUGa -3' miRNA: 3'- gGGCCGU-------UCCUCCAUCCaguaCUCAC- -5' |
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| 8844 | 3' | -54.7 | NC_002484.1 | + | 40464 | 0.69 | 0.556683 |
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Target: 5'- gCUCGGCAGGGGa--AGGagCAUGAGUGa -3' miRNA: 3'- -GGGCCGUUCCUccaUCCa-GUACUCAC- -5' |
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| 8844 | 3' | -54.7 | NC_002484.1 | + | 41664 | 0.75 | 0.282178 |
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Target: 5'- gCCCGGCAAGGAGG-GGGU-GUGA-UGg -3' miRNA: 3'- -GGGCCGUUCCUCCaUCCAgUACUcAC- -5' |
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| 8844 | 3' | -54.7 | NC_002484.1 | + | 32541 | 1.11 | 0.000941 |
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Target: 5'- gCCCGGCAAGGAGGUAGGUCAUGAGUGa -3' miRNA: 3'- -GGGCCGUUCCUCCAUCCAGUACUCAC- -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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