miRNA: 3'- aCUCG---CCCUUCG--GCC-CUUGCUGCaGG- -5'
miRNA: 3'- acUCGCCCU-------UCGGCCC-UUGCUGCAGg -5'
miRNA: 3'- acUCGCCCUU---CgGCCCUUGCUGCaGG- -5'
miRNA: 3'- -ACuCGCCCUUcGGCCC--UUGCUGCAGg -5'
miRNA: 3'- -ACUCGCCCUUCGGCCCUUGCUGCAGG- -5'
Results 21 - 25 of 25 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 | |||||||
| 8166 | 3' | -57.5 | NC_001978.2 | + | 2329 | 0.71 | 0.266827 |
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Target: 5'- gGGGCacuGGGAAGCucCGGcGGAUGACGcCCa -3' miRNA: 3'- aCUCG---CCCUUCG--GCC-CUUGCUGCaGG- -5' |
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| 8166 | 3' | -57.5 | NC_001978.2 | + | 35825 | 0.74 | 0.174889 |
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Target: 5'- -cGGCGGGAguggucgAGCUGGGcGACGGCGUUg -3' miRNA: 3'- acUCGCCCU-------UCGGCCC-UUGCUGCAGg -5' |
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| 8166 | 3' | -57.5 | NC_001978.2 | + | 987 | 0.74 | 0.170688 |
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Target: 5'- -cGGCGGGAGucuGgCGGGGGCGACGaCCc -3' miRNA: 3'- acUCGCCCUU---CgGCCCUUGCUGCaGG- -5' |
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| 8166 | 3' | -57.5 | NC_001978.2 | + | 25579 | 0.77 | 0.116086 |
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Target: 5'- aUGcGCGGGAA-CCGGGcgAACGACGUCg -3' miRNA: 3'- -ACuCGCCCUUcGGCCC--UUGCUGCAGg -5' |
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| 8166 | 3' | -57.5 | NC_001978.2 | + | 9048 | 1.11 | 0.000331 |
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Target: 5'- uUGAGCGGGAAGCCGGGAACGACGUCCu -3' miRNA: 3'- -ACUCGCCCUUCGGCCCUUGCUGCAGG- -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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