miRNA: 3'- -UGCgUCCACG---------------UCGUCCGguaUAAUCG- -5'
miRNA: 3'- -UGCGUCCa-CG-------------UCGUCCGgUaUAAUCG- -5'
miRNA: 3'- uGCGuCCACGUCG--UCCGGUAUa---------AUCG- -5'
miRNA: 3'- -UGcGUCCaCGUCGUCCGGUauaaucg -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 | |||||||
| 166 | 3' | -53.4 | AC_000007.1 | + | 24231 | 0.67 | 0.580867 |
|
Target: 5'- aGCGgGGGUGCcucgacggggaagguGGUAGGCgc-GUUGGCg -3' miRNA: 3'- -UGCgUCCACG---------------UCGUCCGguaUAAUCG- -5' |
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| 166 | 3' | -53.4 | AC_000007.1 | + | 26075 | 0.66 | 0.668471 |
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Target: 5'- gACGCAGGcgGUaagcuccgcauuuGGCGGGCgGgAUUGGUc -3' miRNA: 3'- -UGCGUCCa-CG-------------UCGUCCGgUaUAAUCG- -5' |
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| 166 | 3' | -53.4 | AC_000007.1 | + | 26780 | 0.68 | 0.530423 |
|
Target: 5'- cCGCcGGUGCAGUagGGGCUGUAgagaugacggUAGUa -3' miRNA: 3'- uGCGuCCACGUCG--UCCGGUAUa---------AUCG- -5' |
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| 166 | 3' | -53.4 | AC_000007.1 | + | 27459 | 0.68 | 0.508011 |
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Target: 5'- cAC-CAGG-GCAGCGGGCCAa------ -3' miRNA: 3'- -UGcGUCCaCGUCGUCCGGUauaaucg -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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