miRNA: 3'- -CUUGggCcGCG---CGAGCGUGUUGAuac -5'
miRNA: 3'- cUUGGGCC-GCgCGAGCGUGU----UGa--UAC- -5'
miRNA: 3'- cUUGgGCCGCGCGA--------GCGUGUUGauac -5'
miRNA: 3'- cuUGGG--CCGCGCGa----GCGUGUUGauac -5'
miRNA: 3'- -CUUGGGCCGCGCGAGCGUGUUGAUAC- -5'
Results 41 - 45 of 45 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 | |||||||
| 26586 | 3' | -55.4 | NC_005357.1 | + | 18134 | 0.67 | 0.569245 |
|
Target: 5'- cGAACuuGuCGCccgGCUCGCGCAGCUu-- -3' miRNA: 3'- -CUUGggCcGCG---CGAGCGUGUUGAuac -5' |
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| 26586 | 3' | -55.4 | NC_005357.1 | + | 26272 | 0.67 | 0.558142 |
|
Target: 5'- cGGCCUGGuCG-GCUCGCGCAucgcGCgcgAUGg -3' miRNA: 3'- cUUGGGCC-GCgCGAGCGUGU----UGa--UAC- -5' |
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| 26586 | 3' | -55.4 | NC_005357.1 | + | 28757 | 0.67 | 0.536131 |
|
Target: 5'- cAGCgCGGUGCGCUucucggcgCGCACGGCg--- -3' miRNA: 3'- cUUGgGCCGCGCGA--------GCGUGUUGauac -5' |
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| 26586 | 3' | -55.4 | NC_005357.1 | + | 7092 | 0.68 | 0.514431 |
|
Target: 5'- -uACCCacGGCGCGCccacgCGCACGAUg--- -3' miRNA: 3'- cuUGGG--CCGCGCGa----GCGUGUUGauac -5' |
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| 26586 | 3' | -55.4 | NC_005357.1 | + | 32041 | 1.07 | 0.000872 |
|
Target: 5'- uGAACCCGGCGCGCUCGCACAACUAUGc -3' miRNA: 3'- -CUUGGGCCGCGCGAGCGUGUUGAUAC- -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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