miRNA: 3'- -CGCC-------UAGGUC-CAGCUAGu--GCUCCUGc -5'
miRNA: 3'- -CGC-CUAGGUcCAGCUAGUGCU---------------CCUGC- -5'
miRNA: 3'- -CGCCU---AGGuCCAGCUAGU---------------GCUCCUgc -5'
miRNA: 3'- cGCCuAGGUCCaGCuAGugCUCCUGC- -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 | |||||||
| 16316 | 5' | -54.9 | NC_004084.1 | + | 46836 | 0.7 | 0.553206 |
|
Target: 5'- uGCGGcgacaccGUUCAGuGUCGAUUccuCGAGGACa -3' miRNA: 3'- -CGCC-------UAGGUC-CAGCUAGu--GCUCCUGc -5' |
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| 16316 | 5' | -54.9 | NC_004084.1 | + | 49003 | 0.68 | 0.676903 |
|
Target: 5'- cGCGcGGUCCGuGUCGAUCGUGAccgacacgacguccuGGACGg -3' miRNA: 3'- -CGC-CUAGGUcCAGCUAGUGCU---------------CCUGC- -5' |
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| 16316 | 5' | -54.9 | NC_004084.1 | + | 50029 | 0.68 | 0.655368 |
|
Target: 5'- aGCGGGgugUCCcGGUCGGUCAgcguguagugguagcUGAGGAg- -3' miRNA: 3'- -CGCCU---AGGuCCAGCUAGU---------------GCUCCUgc -5' |
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| 16316 | 5' | -54.9 | NC_004084.1 | + | 54815 | 0.75 | 0.321196 |
|
Target: 5'- uCGG-UCCAGGcCG-UCugGAGGACGu -3' miRNA: 3'- cGCCuAGGUCCaGCuAGugCUCCUGC- -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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