miRNA: 3'- -UGGGCGGCgu-AUCCG------CUCGa---------CCUUCG- -5'
miRNA: 3'- -UGggCGG-CGUAUCCGCuC-GACCU------UCG- -5'
miRNA: 3'- -UGGGCGGCgUAUCCG---CUCG---------------ACCUUCG- -5'
Results 41 - 43 of 43 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 | |||||||
| 23033 | 5' | -58.7 | NC_005178.1 | + | 1736 | 0.66 | 0.406169 |
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Target: 5'- uGCUCGCCGaacUGGGCcgccuuGAGCggacccgcgaGGAAGCg -3' miRNA: 3'- -UGGGCGGCgu-AUCCG------CUCGa---------CCUUCG- -5' |
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| 23033 | 5' | -58.7 | NC_005178.1 | + | 23746 | 0.66 | 0.415608 |
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Target: 5'- gGCuuGCCgGCAUGGGUGuGaUUGGGuuucucGGCg -3' miRNA: 3'- -UGggCGG-CGUAUCCGCuC-GACCU------UCG- -5' |
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| 23033 | 5' | -58.7 | NC_005178.1 | + | 36066 | 0.66 | 0.429046 |
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Target: 5'- gGCCCGCUG-GUGGGCaacGGGUgcgaccacggcuaucUGGGAGUa -3' miRNA: 3'- -UGGGCGGCgUAUCCG---CUCG---------------ACCUUCG- -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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