miRNA: 3'- gaCUCCG---CUUUa-GCCUCACUUGUaua -5'
miRNA: 3'- -GACUCCGCU-------UUAGCCUCa-CUUGuaUa -5'
miRNA: 3'- gACUCC-GCUUUAGCCUCA--CUU-GUAua -5'
miRNA: 3'- gACUCCGCUuua---GCCUCACUUGuaua -5'
miRNA: 3'- gaCUCCGCuuuAGCCUCACU---UGUAUA- -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 | |||||||
| 22161 | 5' | -48.3 | NC_004927.1 | + | 38186 | 0.69 | 0.942386 |
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Target: 5'- -cGAGGUuccGAGAgcCGGAGUGAACGa-- -3' miRNA: 3'- gaCUCCG---CUUUa-GCCUCACUUGUaua -5' |
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| 22161 | 5' | -48.3 | NC_004927.1 | + | 37306 | 0.7 | 0.905717 |
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Target: 5'- aCUGAGGUGGcuccaacAGUCGGAGcgGAACcgAc -3' miRNA: 3'- -GACUCCGCU-------UUAGCCUCa-CUUGuaUa -5' |
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| 22161 | 5' | -48.3 | NC_004927.1 | + | 34153 | 0.7 | 0.899376 |
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Target: 5'- aUGAGGuCGAAGUCGGGGUuaGAGgCGUc- -3' miRNA: 3'- gACUCC-GCUUUAGCCUCA--CUU-GUAua -5' |
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| 22161 | 5' | -48.3 | NC_004927.1 | + | 30832 | 0.73 | 0.76336 |
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Target: 5'- gUGAGGCGGuguccaCGGAGUGAACc--- -3' miRNA: 3'- gACUCCGCUuua---GCCUCACUUGuaua -5' |
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| 22161 | 5' | -48.3 | NC_004927.1 | + | 41145 | 0.75 | 0.697659 |
|
Target: 5'- -cGAGGUGuu-UCGGGGUGAguuGCAUAUa -3' miRNA: 3'- gaCUCCGCuuuAGCCUCACU---UGUAUA- -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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