miRNA: 3'- gCG-GUGCAACUa----GUGCC-AGCUCUAGC- -5'
miRNA: 3'- gCGGuGCAACUaGUGCCA---------GCUCUAGc -5'
miRNA: 3'- gCGGUGCaacuaGUGCCAGCUCUAGC- -5'
miRNA: 3'- -GCGGUGCa-------ACUAGuGCCa---GCUCUAGc -5'
miRNA: 3'- -GCGGUGCAACUAGUGCCAGCUCUAGC- -5'
Results 21 - 25 of 25 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 | |||||||
| 23336 | 3' | -52.5 | NC_005259.1 | + | 28028 | 0.72 | 0.65064 |
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Target: 5'- uGCgCGCGUUGGccagcCACGGcUUGGGAUCGa -3' miRNA: 3'- gCG-GUGCAACUa----GUGCC-AGCUCUAGC- -5' |
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| 23336 | 3' | -52.5 | NC_005259.1 | + | 39000 | 0.72 | 0.62888 |
|
Target: 5'- aGCCuCGUUGAgCGCGGUgaccagaccCGAGAUCc -3' miRNA: 3'- gCGGuGCAACUaGUGCCA---------GCUCUAGc -5' |
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| 23336 | 3' | -52.5 | NC_005259.1 | + | 57955 | 0.75 | 0.450879 |
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Target: 5'- gGCCAUGgccccCAUGGUCGAGGUCGc -3' miRNA: 3'- gCGGUGCaacuaGUGCCAGCUCUAGC- -5' |
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| 23336 | 3' | -52.5 | NC_005259.1 | + | 58310 | 0.77 | 0.359764 |
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Target: 5'- cCGCCACGguugauggUGAUCuCGGgcagCGAGAUCa -3' miRNA: 3'- -GCGGUGCa-------ACUAGuGCCa---GCUCUAGc -5' |
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| 23336 | 3' | -52.5 | NC_005259.1 | + | 5045 | 1.09 | 0.00309 |
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Target: 5'- gCGCCACGUUGAUCACGGUCGAGAUCGu -3' miRNA: 3'- -GCGGUGCAACUAGUGCCAGCUCUAGC- -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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