miRNA: 3'- -CCGCGA----ACGGGUa---CCG-GCa---UUGCUag -5'
miRNA: 3'- -CCGCGaaCGg-GUACCGGCAUuGC---UAG- -5'
miRNA: 3'- -CCGCGaa-CGGGUAcc----GGCaUugCUAG- -5'
miRNA: 3'- ccGCGAaCGGGuACCgGCAUUGCUAG- -5'
Results 21 - 24 of 24 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 | |||||||
| 8102 | 3' | -54.9 | NC_001978.2 | + | 34225 | 0.66 | 0.652179 |
|
Target: 5'- cGGCGCUcaguUGCCCAcgugGGCaCGcuccGGCGGa- -3' miRNA: 3'- -CCGCGA----ACGGGUa---CCG-GCa---UUGCUag -5' |
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| 8102 | 3' | -54.9 | NC_001978.2 | + | 35778 | 0.67 | 0.584478 |
|
Target: 5'- uGGCGCg-GCagCGUGGCCGUGuCGuccGUCu -3' miRNA: 3'- -CCGCGaaCGg-GUACCGGCAUuGC---UAG- -5' |
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| 8102 | 3' | -54.9 | NC_001978.2 | + | 36479 | 0.66 | 0.629575 |
|
Target: 5'- gGGCGCgugGCCCGUcgcguuCCG-AugGAUCa -3' miRNA: 3'- -CCGCGaa-CGGGUAcc----GGCaUugCUAG- -5' |
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| 8102 | 3' | -54.9 | NC_001978.2 | + | 38733 | 0.7 | 0.387233 |
|
Target: 5'- -uUGCUcGCCC-UGGgCGUGACGAUUg -3' miRNA: 3'- ccGCGAaCGGGuACCgGCAUUGCUAG- -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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