miRNA: 3'- cGCuuGAUGCUA----GAGGCGCG----------ACUGGG- -5'
miRNA: 3'- cGCUUGAugCU--AGAGgCGCGaCUGGG- -5'
miRNA: 3'- -CGCUUGAUGCUAGaGGCGCGACUGGG- -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 | |||||||
| 758 | 5' | -53.5 | NC_000852.3 | + | 216800 | 0.67 | 0.99394 |
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Target: 5'- uCGu-CUACGAUaucaCUCCGCGCggaaaggaacUGACUCa -3' miRNA: 3'- cGCuuGAUGCUA----GAGGCGCG----------ACUGGG- -5' |
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| 758 | 5' | -53.5 | NC_000852.3 | + | 105126 | 0.75 | 0.812562 |
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Target: 5'- uCGAACUugGAgaUCUCaGUGCaGACCCg -3' miRNA: 3'- cGCUUGAugCU--AGAGgCGCGaCUGGG- -5' |
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| 758 | 5' | -53.5 | NC_000852.3 | + | 175069 | 1.04 | 0.024925 |
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Target: 5'- cGCGAACUACGAUC-CCGCGCUGACCCc -3' miRNA: 3'- -CGCUUGAUGCUAGaGGCGCGACUGGG- -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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