miRNA: 3'- -CGCUGUAGUAGCAGuggaCCCUa----UUG- -5'
miRNA: 3'- -CGCUGUAgUAGCaGUGgaCCCUAU---UG- -5'
miRNA: 3'- -CGC-UGUAGua-GCAGUGGACCcuauug -5'
miRNA: 3'- -CGCUGUAGUa--GcAGUGGACccUAUUG- -5'
miRNA: 3'- -CGCUGUAGUAGCagUGGAcCCUaUUG- -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 | |||||||
| 30873 | 5' | -49.7 | NC_006552.1 | + | 1929 | 0.67 | 0.95709 |
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Target: 5'- gGCGGCGUCGUUGUC----GGGAgugugGACg -3' miRNA: 3'- -CGCUGUAGUAGCAGuggaCCCUa----UUG- -5' |
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| 30873 | 5' | -49.7 | NC_006552.1 | + | 14760 | 0.67 | 0.952809 |
|
Target: 5'- uGCGGCAU-GUCGgCGCgaGGGAUGcccACg -3' miRNA: 3'- -CGCUGUAgUAGCaGUGgaCCCUAU---UG- -5' |
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| 30873 | 5' | -49.7 | NC_006552.1 | + | 42024 | 0.67 | 0.94825 |
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Target: 5'- cGCGuGCAUCugcCGUCACCUGGu----- -3' miRNA: 3'- -CGC-UGUAGua-GCAGUGGACCcuauug -5' |
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| 30873 | 5' | -49.7 | NC_006552.1 | + | 35865 | 0.69 | 0.894294 |
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Target: 5'- uGCGACGUCGgggCcUCGCCUGccGUGGCg -3' miRNA: 3'- -CGCUGUAGUa--GcAGUGGACccUAUUG- -5' |
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| 30873 | 5' | -49.7 | NC_006552.1 | + | 63571 | 0.76 | 0.503748 |
|
Target: 5'- cGCGGCAUCGUCGaaGCCUuGGAcAACa -3' miRNA: 3'- -CGCUGUAGUAGCagUGGAcCCUaUUG- -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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