miRNA: 3'- uCUUcGCgCU--AGCUuaUGAGCUGGUG- -5'
miRNA: 3'- uCuUCGCGCUAGcuUAUGAGCUGGUG- -5'
miRNA: 3'- -UCU--UCG----CGCUaGC-UUAUGAGCUGGUG- -5'
miRNA: 3'- -UCUUCgCGCUAGCUUAUGAGCUGGUG- -5'
miRNA: 3'- -UCUUCGCGCUAGCUUAUGAGCUGGUG- -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 |
| Predicted miRNA align pattern | |||||||
| 9809 | 3' | -50.5 | NC_002593.1 | + | 34619 | 0.66 | 0.985136 |
|
Target: 5'- cGAGuCGgGAcgUCGGcgGCUUGGCCACc -3' miRNA: 3'- uCUUcGCgCU--AGCUuaUGAGCUGGUG- -5' |
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| 9809 | 3' | -50.5 | NC_002593.1 | + | 56366 | 0.66 | 0.981057 |
|
Target: 5'- cGuGGUGUGAUU--GUACUCGAUCAUa -3' miRNA: 3'- uCuUCGCGCUAGcuUAUGAGCUGGUG- -5' |
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| 9809 | 3' | -50.5 | NC_002593.1 | + | 36522 | 0.7 | 0.888208 |
|
Target: 5'- gAGAgcGGCaaccGCGA-CGaAGUGCUCGACUACg -3' miRNA: 3'- -UCU--UCG----CGCUaGC-UUAUGAGCUGGUG- -5' |
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| 9809 | 3' | -50.5 | NC_002593.1 | + | 36468 | 0.83 | 0.279682 |
|
Target: 5'- aAGAGG-GUGGUCGAGUAUUCGAUCGCg -3' miRNA: 3'- -UCUUCgCGCUAGCUUAUGAGCUGGUG- -5' |
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| 9809 | 3' | -50.5 | NC_002593.1 | + | 36336 | 1.1 | 0.005783 |
|
Target: 5'- gAGAAGCGCGAUCGAAUACUCGACCACc -3' miRNA: 3'- -UCUUCGCGCUAGCUUAUGAGCUGGUG- -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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