miRNA: 3'- ccCGUGCGUUGCUuGAGC-ACUGCAcc -5'
miRNA: 3'- cCCGUGCGU--------UGCUUGAGCa-CUGcACC- -5'
miRNA: 3'- -CCCGUg--C-GUUGCU-UGAGCACUGCacc -5'
miRNA: 3'- -CCCG------UGCGUUGC---UUGAGCa----CUGCaCC- -5'
miRNA: 3'- cCCGuGCgUUGCUUGagCACUGCACC- -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 | |||||||
| 18963 | 5' | -52.7 | NC_004683.1 | + | 44494 | 0.7 | 0.653158 |
|
Target: 5'- -uGCGCGCGACGAcUUCGgUGGCGUa- -3' miRNA: 3'- ccCGUGCGUUGCUuGAGC-ACUGCAcc -5' |
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| 18963 | 5' | -52.7 | NC_004683.1 | + | 24737 | 0.7 | 0.664104 |
|
Target: 5'- uGGUGCGCAgcaggcgcGCGAACUCGgcGGCcUGGg -3' miRNA: 3'- cCCGUGCGU--------UGCUUGAGCa-CUGcACC- -5' |
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| 18963 | 5' | -52.7 | NC_004683.1 | + | 41562 | 0.69 | 0.728771 |
|
Target: 5'- aGGGCAgaaGaCAAUGAcGCUCGUGGCGa-- -3' miRNA: 3'- -CCCGUg--C-GUUGCU-UGAGCACUGCacc -5' |
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| 18963 | 5' | -52.7 | NC_004683.1 | + | 24355 | 0.69 | 0.728771 |
|
Target: 5'- cGGGCccaugaGCGCGGCGuagGACUCGgcguaGGCGcGGg -3' miRNA: 3'- -CCCG------UGCGUUGC---UUGAGCa----CUGCaCC- -5' |
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| 18963 | 5' | -52.7 | NC_004683.1 | + | 24079 | 0.73 | 0.512513 |
|
Target: 5'- cGGC-CGgGGCGGGCg-GUGGCGUGGu -3' miRNA: 3'- cCCGuGCgUUGCUUGagCACUGCACC- -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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