miRNA: 3'- -GUGGAAuaCGCCugCGUCG--------UAa-CGGa -5'
miRNA: 3'- gUGGAAUa-CGCCuGCGUCGUa---ACGGa -5'
miRNA: 3'- -GUGGAAUACGCCUGCGUCGUAACGGA- -5'
Results 1 - 3 of 3 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# |
P value
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| Predicted miRNA align pattern | |||||||
| 12049 | 5' | -53.5 | NC_003298.1 | + | 9429 | 0.72 | 0.344049 |
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Target: 5'- cUACCUUcgGCGGugGCGGUgaagaugaGUggGCCg -3' miRNA: 3'- -GUGGAAuaCGCCugCGUCG--------UAa-CGGa -5' |
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| 12049 | 5' | -53.5 | NC_003298.1 | + | 16328 | 0.75 | 0.200881 |
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Target: 5'- gGCCUUAgcGUGGuCGCAGCAgcggUGCCa -3' miRNA: 3'- gUGGAAUa-CGCCuGCGUCGUa---ACGGa -5' |
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| 12049 | 5' | -53.5 | NC_003298.1 | + | 32079 | 1.08 | 0.000982 |
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Target: 5'- aCACCUUAUGCGGACGCAGCAUUGCCUc -3' miRNA: 3'- -GUGGAAUACGCCUGCGUCGUAACGGA- -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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