miRNA: 3'- -CGGaCUuUCUu-CUUugUUGUUGUCGg -5'
miRNA: 3'- cGGACUUUcUUCuUUGUUGUuGUCGG- -5'
miRNA: 3'- -CGGACUuuc----UUCUUUGUUGUUG---------------UCGG- -5'
miRNA: 3'- -CGG--ACUUUCuUCU--UUGUUGUug---UCGG- -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 | |||||||
| 27254 | 3' | -43.8 | NC_005841.1 | + | 33714 | 0.67 | 0.996848 |
|
Target: 5'- uGCUcGAcAGAccGGAugGACAGCAGCa -3' miRNA: 3'- -CGGaCUuUCUu-CUUugUUGUUGUCGg -5' |
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| 27254 | 3' | -43.8 | NC_005841.1 | + | 35511 | 0.68 | 0.993543 |
|
Target: 5'- cCCUGAGA-AAG-AGCGACGuUAGCCu -3' miRNA: 3'- cGGACUUUcUUCuUUGUUGUuGUCGG- -5' |
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| 27254 | 3' | -43.8 | NC_005841.1 | + | 36584 | 0.71 | 0.967587 |
|
Target: 5'- uGCCUGGuacuuuuGAGAGGCAAUAACgucuuuccaugccuuAGCCa -3' miRNA: 3'- -CGGACUuuc----UUCUUUGUUGUUG---------------UCGG- -5' |
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| 27254 | 3' | -43.8 | NC_005841.1 | + | 36710 | 0.68 | 0.992385 |
|
Target: 5'- aGCCguUGGAGGuGGAuaAGCAGCAuagaaAGCCu -3' miRNA: 3'- -CGG--ACUUUCuUCU--UUGUUGUug---UCGG- -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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