miRNA: 3'- -AGCA-GUAGUAGG-AGGAgCGcUA-GGUC- -5'
miRNA: 3'- -AGCa-GUAGuAGGAGgAGCGC-UAGGUc -5'
miRNA: 3'- aGCAgUa-GUAGGAGGaGCGcUAGGUC- -5'
miRNA: 3'- aGCAGUAGUAGG----AGG-AGCgCUAGGuc -5'
miRNA: 3'- -AGCAGUAGUAGGAGGAGCGCUAGGUC- -5'
Results 21 - 25 of 25 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
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Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 16254 | 5' | -53.5 | NC_004084.1 | + | 23157 | 0.67 | 0.757891 |
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Target: 5'- cUCGUcCAUCGUCCaUCCUgGUcGUcCCAGa -3' miRNA: 3'- -AGCA-GUAGUAGG-AGGAgCGcUA-GGUC- -5' |
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| 16254 | 5' | -53.5 | NC_004084.1 | + | 4355 | 0.67 | 0.757891 |
|
Target: 5'- cUCGccCGUC-UCCUCgUCGCGcGUCCAa -3' miRNA: 3'- -AGCa-GUAGuAGGAGgAGCGC-UAGGUc -5' |
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| 16254 | 5' | -53.5 | NC_004084.1 | + | 29095 | 0.68 | 0.704979 |
|
Target: 5'- gCGUgGgaCGUCCUCCgCGCcAUCCAGg -3' miRNA: 3'- aGCAgUa-GUAGGAGGaGCGcUAGGUC- -5' |
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| 16254 | 5' | -53.5 | NC_004084.1 | + | 17164 | 0.69 | 0.67228 |
|
Target: 5'- cCGUCAUCAUCCcgauUCCgUCGgGGUUCu- -3' miRNA: 3'- aGCAGUAGUAGG----AGG-AGCgCUAGGuc -5' |
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| 16254 | 5' | -53.5 | NC_004084.1 | + | 55941 | 1.09 | 0.001865 |
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Target: 5'- gUCGUCAUCAUCCUCCUCGCGAUCCAGc -3' miRNA: 3'- -AGCAGUAGUAGGAGGAGCGCUAGGUC- -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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