miRNA: 3'- cAUGGUGCa-CCCAUA-UUCCU--------UACGCU- -5'
miRNA: 3'- cAUGGuG-CACCCAUaUUC-CUUACGcu -5'
miRNA: 3'- caUGGUGCaCCCauaUUCCUua-CGCU- -5'
miRNA: 3'- cAUGGugCACCCAuauUCC--UUACGcu -5'
miRNA: 3'- -CAUGGUGCACCCAUAUUCCUUACGCU- -5'
Results 1 - 5 of 5 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 | |||||||
| 9415 | 5' | -49.2 | NC_002531.1 | + | 55143 | 0.66 | 0.997633 |
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Target: 5'- cUGCCAUGccGGGUAUaGAGGGccccaucaAUGUGAc -3' miRNA: 3'- cAUGGUGCa-CCCAUA-UUCCU--------UACGCU- -5' |
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| 9415 | 5' | -49.2 | NC_002531.1 | + | 121385 | 0.66 | 0.997177 |
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Target: 5'- uUACC-CaGUGGGUAcGAGcGGAUGCa- -3' miRNA: 3'- cAUGGuG-CACCCAUaUUC-CUUACGcu -5' |
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| 9415 | 5' | -49.2 | NC_002531.1 | + | 36021 | 0.67 | 0.993681 |
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Target: 5'- -gGCCACG-GGGgc-GAGGGuucGCGAg -3' miRNA: 3'- caUGGUGCaCCCauaUUCCUua-CGCU- -5' |
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| 9415 | 5' | -49.2 | NC_002531.1 | + | 26122 | 0.7 | 0.964887 |
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Target: 5'- cUACCugGUGGGUuuuGGGuaAAUGCu- -3' miRNA: 3'- cAUGGugCACCCAuauUCC--UUACGcu -5' |
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| 9415 | 5' | -49.2 | NC_002531.1 | + | 7159 | 1.1 | 0.008809 |
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Target: 5'- cGUACCACGUGGGUAUAAGGAAUGCGAa -3' miRNA: 3'- -CAUGGUGCACCCAUAUUCCUUACGCU- -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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