miRNA: 3'- cUUGCUcCG-------------UCGGCA----CCGCGUGCGGa -5'
miRNA: 3'- cuUGCUCCGuCGGCa--CCGCGUGcGGA- -5'
miRNA: 3'- cUUGCucCGUCGGCA-C-CGCGUGCgGA- -5'
miRNA: 3'- -CUUGCUCCGUCGGCACCGCGUGCGGA- -5'
Results 21 - 24 of 24 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 | |||||||
| 22551 | 5' | -60.8 | NC_005091.1 | + | 29603 | 0.66 | 0.428686 |
|
Target: 5'- aGGCGAcGCgcaacgaccucgaAGCUGUgaucGGCGCGCGCCa -3' miRNA: 3'- cUUGCUcCG-------------UCGGCA----CCGCGUGCGGa -5' |
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| 22551 | 5' | -60.8 | NC_005091.1 | + | 52534 | 0.66 | 0.429614 |
|
Target: 5'- -cAUGGGGUcGCCGcccGGCGCGC-CCUg -3' miRNA: 3'- cuUGCUCCGuCGGCa--CCGCGUGcGGA- -5' |
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| 22551 | 5' | -60.8 | NC_005091.1 | + | 50818 | 0.66 | 0.438962 |
|
Target: 5'- aAGCGu-GCGGCCGUcGuGCGCGCGgCUa -3' miRNA: 3'- cUUGCucCGUCGGCA-C-CGCGUGCgGA- -5' |
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| 22551 | 5' | -60.8 | NC_005091.1 | + | 57554 | 1.06 | 0.00046 |
|
Target: 5'- uGAACGAGGCAGCCGUGGCGCACGCCUu -3' miRNA: 3'- -CUUGCUCCGUCGGCACCGCGUGCGGA- -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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