miRNA: 3'- caCCGuAGUGAGGG--------GACAGC-------GGGUCG- -5'
miRNA: 3'- caCCGUAGuGaGGG-GACAGCG-GGu----CG- -5'
miRNA: 3'- -CACCGUaGUG-AGGGgac--AGCGGGuCG- -5'
miRNA: 3'- caCCGUaGUGAGGGga----CAGCGg-GUCG- -5'
Results 21 - 24 of 24 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 | |||||||
| 11502 | 3' | -58.9 | NC_003085.1 | + | 33099 | 0.66 | 0.484146 |
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Target: 5'- -aGGC-UCACUCCUggguggcgCUGUCGaacgcucCCUAGCg -3' miRNA: 3'- caCCGuAGUGAGGG--------GACAGC-------GGGUCG- -5' |
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| 11502 | 3' | -58.9 | NC_003085.1 | + | 27707 | 0.66 | 0.485159 |
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Target: 5'- -gGGCGUC-CgCCCgCUGUCGCgCCucguuGCu -3' miRNA: 3'- caCCGUAGuGaGGG-GACAGCG-GGu----CG- -5' |
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| 11502 | 3' | -58.9 | NC_003085.1 | + | 33416 | 0.66 | 0.485159 |
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Target: 5'- cGUGGCG-CACgUCCCauaccUCGCCC-GCa -3' miRNA: 3'- -CACCGUaGUG-AGGGgac--AGCGGGuCG- -5' |
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| 11502 | 3' | -58.9 | NC_003085.1 | + | 40333 | 0.66 | 0.495342 |
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Target: 5'- -aGGUGcCGCUCCCagagagGUCGCgaCAGCa -3' miRNA: 3'- caCCGUaGUGAGGGga----CAGCGg-GUCG- -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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