miRNA: 3'- cuCCGGU--------------ACGACGCGU-UGCUGUGGUU- -5'
miRNA: 3'- cUCCGGUACGA--------------CGCGUUG----CUGUGGUU- -5'
miRNA: 3'- -CUCCGGUACGACGCGUUGCUGUGGUU- -5'
Results 21 - 23 of 23 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 | |||||||
| 404 | 5' | -56.7 | AC_000011.1 | + | 22450 | 0.74 | 0.129475 |
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Target: 5'- -uGGCCAacaacgacgcgcgcUGCUGCGUGcACGACGCCGGg -3' miRNA: 3'- cuCCGGU--------------ACGACGCGU-UGCUGUGGUU- -5' |
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| 404 | 5' | -56.7 | AC_000011.1 | + | 15864 | 0.74 | 0.125746 |
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Target: 5'- aGGGCCAUGCUcagggcggccagacGCGCGGCuucaGGCGCCAGc -3' miRNA: 3'- cUCCGGUACGA--------------CGCGUUG----CUGUGGUU- -5' |
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| 404 | 5' | -56.7 | AC_000011.1 | + | 20127 | 1.06 | 0.000515 |
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Target: 5'- cGAGGCCAUGCUGCGCAACGACACCAAc -3' miRNA: 3'- -CUCCGGUACGACGCGUUGCUGUGGUU- -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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