miRNA: 3'- gUGGUCAGaCUC-GGAACUgg---UCUGcu -5'
miRNA: 3'- -GUGGUca---GACuCGGa------ACUGGUCUGCU- -5'
miRNA: 3'- gUGGUC---AGACUCGGAaCUGGUC---------UGCU- -5'
miRNA: 3'- -GUGGUCAG---ACUCGgA-ACUGG-UCUGcu -5'
miRNA: 3'- -GUGGUCAGACUCGGAACUGGUCUGCU- -5'
Results 1 - 5 of 5 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 | |||||||
| 17982 | 3' | -54.3 | NC_004665.1 | + | 8868 | 0.66 | 0.664353 |
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Target: 5'- aGCCAGUCaGAGaCCUUGAaggaaGGGCa- -3' miRNA: 3'- gUGGUCAGaCUC-GGAACUgg---UCUGcu -5' |
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| 17982 | 3' | -54.3 | NC_004665.1 | + | 25965 | 0.66 | 0.618598 |
|
Target: 5'- gCACCAaccugCUGcGCUcucugcgUGACCAGACGAu -3' miRNA: 3'- -GUGGUca---GACuCGGa------ACUGGUCUGCU- -5' |
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| 17982 | 3' | -54.3 | NC_004665.1 | + | 27567 | 0.67 | 0.595753 |
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Target: 5'- aACCGGgccUCUGGGUCUgGGCCAGuucaccaagGCGAc -3' miRNA: 3'- gUGGUC---AGACUCGGAaCUGGUC---------UGCU- -5' |
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| 17982 | 3' | -54.3 | NC_004665.1 | + | 4304 | 0.68 | 0.517325 |
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Target: 5'- gCGCCAGUCcgcUGAGCgUaUGACCgAGACc- -3' miRNA: 3'- -GUGGUCAG---ACUCGgA-ACUGG-UCUGcu -5' |
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| 17982 | 3' | -54.3 | NC_004665.1 | + | 18296 | 1.08 | 0.000823 |
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Target: 5'- uCACCAGUCUGAGCCUUGACCAGACGAc -3' miRNA: 3'- -GUGGUCAGACUCGGAACUGGUCUGCU- -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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