miRNA: 3'- uUUgUGGaCCGCUGUgUu--CCGGUGCG- -5'
miRNA: 3'- -UUUGUGGA------CCGCUGUGU--UCCGGuGCg -5'
miRNA: 3'- -UUUGUGGaCCGCUGu------GUUCc-GGUGCG- -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 | |||||||
| 449 | 3' | -55.2 | AC_000013.1 | + | 17061 | 0.66 | 0.613956 |
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Target: 5'- cAGgACCcGGUGACGgGucuGGUCACGCc -3' miRNA: 3'- uUUgUGGaCCGCUGUgUu--CCGGUGCG- -5' |
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| 449 | 3' | -55.2 | AC_000013.1 | + | 16097 | 0.66 | 0.613956 |
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Target: 5'- aGAACGCCUcgcgucGGCGGCAUGucAGGCUcCGg -3' miRNA: 3'- -UUUGUGGA------CCGCUGUGU--UCCGGuGCg -5' |
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| 449 | 3' | -55.2 | AC_000013.1 | + | 28595 | 0.66 | 0.636575 |
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Target: 5'- cAGACACCgGGUGGCuaucuguCAAGcuCUACGCg -3' miRNA: 3'- -UUUGUGGaCCGCUGu------GUUCc-GGUGCG- -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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