miRNA: 3'- -CUUCG-CUACG-GGCCUUGCcGGGGCUa -5'
miRNA: 3'- cuuCGCuacGGGCCUUGCCGGgGCUA- -5'
miRNA: 3'- -CUUCGCUACGGGCCUUGCCGGGGCUA- -5'
miRNA: 3'- -CUUCGCUACGGGcCUUGc-----CGGGGCua -5'
Results 1 - 4 of 4 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 | |||||||
| 10638 | 3' | -60.1 | NC_002702.1 | + | 13207 | 0.68 | 0.222329 |
|
Target: 5'- cGGAGCaGGUGUaCUGGAGCGuCCCCGGc -3' miRNA: 3'- -CUUCG-CUACG-GGCCUUGCcGGGGCUa -5' |
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| 10638 | 3' | -60.1 | NC_002702.1 | + | 14451 | 0.66 | 0.31931 |
|
Target: 5'- --uGCGc--CCCGGGACGGCCgUGGUc -3' miRNA: 3'- cuuCGCuacGGGCCUUGCCGGgGCUA- -5' |
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| 10638 | 3' | -60.1 | NC_002702.1 | + | 15605 | 1.06 | 0.000263 |
|
Target: 5'- aGAAGCGAUGCCCGGAACGGCCCCGAUg -3' miRNA: 3'- -CUUCGCUACGGGCCUUGCCGGGGCUA- -5' |
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| 10638 | 3' | -60.1 | NC_002702.1 | + | 15967 | 0.66 | 0.31931 |
|
Target: 5'- gGAGGCGAUGCCCuGAACuaguuuGUCCUGu- -3' miRNA: 3'- -CUUCGCUACGGGcCUUGc-----CGGGGCua -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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