miRNA: 3'- aaaaCGACGUGGCu-AGCUCgCGCCCu -5'
miRNA: 3'- aAAACGaCGUGGcuAGCU--CGCGCCCU- -5'
miRNA: 3'- aaaACGACGUG-GCUAG-----CUCGCGCC-CU- -5'
miRNA: 3'- -AAAACGa----CGUGGCUAGCuCGCGCCCu -5'
miRNA: 3'- -AAAACGACGUGGCUAGCUCGCGCCCU- -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 | |||||||
| 24837 | 5' | -56.2 | NC_005284.1 | + | 26405 | 0.7 | 0.391232 |
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Target: 5'- ---gGCUGCGCCGcuUCGAG-GUGGGc -3' miRNA: 3'- aaaaCGACGUGGCu-AGCUCgCGCCCu -5' |
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| 24837 | 5' | -56.2 | NC_005284.1 | + | 11389 | 0.7 | 0.382185 |
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Target: 5'- aUUUGUcGCGCC--UCGAcaGCGCGGGAc -3' miRNA: 3'- aAAACGaCGUGGcuAGCU--CGCGCCCU- -5' |
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| 24837 | 5' | -56.2 | NC_005284.1 | + | 39230 | 0.74 | 0.219608 |
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Target: 5'- --aUGCUGCGCuCGAUCgucguGAGCGUGGuGAu -3' miRNA: 3'- aaaACGACGUG-GCUAG-----CUCGCGCC-CU- -5' |
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| 24837 | 5' | -56.2 | NC_005284.1 | + | 19458 | 0.76 | 0.172208 |
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Target: 5'- uUUUUGCggcagGCGCUGAUCG-GUGCGGGc -3' miRNA: 3'- -AAAACGa----CGUGGCUAGCuCGCGCCCu -5' |
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| 24837 | 5' | -56.2 | NC_005284.1 | + | 39884 | 1.06 | 0.001053 |
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Target: 5'- uUUUUGCUGCACCGAUCGAGCGCGGGAu -3' miRNA: 3'- -AAAACGACGUGGCUAGCUCGCGCCCU- -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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