miRNA: 3'- -UGC-CGGUGGUGC---UCAGA-CAGgUGUUu -5'
miRNA: 3'- ugCCGGUGGUG-CUCAGACAgGUGUUu -5'
miRNA: 3'- -UGCCGGUGGUGCu-CAGac---AGGUGUUU- -5'
miRNA: 3'- -UGCCGGUgGUGc--UCAGAC-AGGUGUUu -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 | |||||||
| 6748 | 3' | -55.9 | NC_001875.2 | + | 117946 | 0.66 | 0.851368 |
|
Target: 5'- uGCGcGCCGCCGCGuuuGGUUUgGUCgACGAc -3' miRNA: 3'- -UGC-CGGUGGUGC---UCAGA-CAGgUGUUu -5' |
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| 6748 | 3' | -55.9 | NC_001875.2 | + | 120542 | 0.74 | 0.429556 |
|
Target: 5'- -aGGCCACCAUgGGGUUUGUgCACAAc -3' miRNA: 3'- ugCCGGUGGUG-CUCAGACAgGUGUUu -5' |
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| 6748 | 3' | -55.9 | NC_001875.2 | + | 120984 | 0.77 | 0.29262 |
|
Target: 5'- cGCGGCCACCGCGucGUCcaccuUCCACAAAa -3' miRNA: 3'- -UGCCGGUGGUGCu-CAGac---AGGUGUUU- -5' |
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| 6748 | 3' | -55.9 | NC_001875.2 | + | 127089 | 0.67 | 0.817564 |
|
Target: 5'- gGCGGCCAgCAUuccAGUCUGaUCUGCGAu -3' miRNA: 3'- -UGCCGGUgGUGc--UCAGAC-AGGUGUUu -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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