miRNA: 3'- gUUGACuuaca------AUAGUCGCGUaCGAC- -5'
miRNA: 3'- -GUUGACUUACaAUAG--UCG---CGUACGAC- -5'
miRNA: 3'- guUGACUUa--CAAUa--GUCGCGuACGAC- -5'
miRNA: 3'- -GUUGACUUACAAUAGUCGCGUACGAC- -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 | |||||||
| 27380 | 3' | -46.5 | NC_005857.1 | + | 32162 | 0.66 | 0.989148 |
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Target: 5'- aAGCUGuucuuccucucUGUCAGCGCA-GCUGa -3' miRNA: 3'- gUUGACuuaca------AUAGUCGCGUaCGAC- -5' |
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| 27380 | 3' | -46.5 | NC_005857.1 | + | 7384 | 0.66 | 0.985365 |
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Target: 5'- cCAGCUGGAUGgUGUCccGGUccaGUAUGUUGa -3' miRNA: 3'- -GUUGACUUACaAUAG--UCG---CGUACGAC- -5' |
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| 27380 | 3' | -46.5 | NC_005857.1 | + | 30029 | 0.71 | 0.881361 |
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Target: 5'- -cGCUGAGgacGUUGgccCAGCGC-UGCUGg -3' miRNA: 3'- guUGACUUa--CAAUa--GUCGCGuACGAC- -5' |
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| 27380 | 3' | -46.5 | NC_005857.1 | + | 38110 | 1.09 | 0.006663 |
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Target: 5'- uCAACUGAAUGUUAUCAGCGCAUGCUGu -3' miRNA: 3'- -GUUGACUUACAAUAGUCGCGUACGAC- -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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