miRNA: 3'- -GCAGUGGUGACGGA---AGCAaCuACGGC- -5'
miRNA: 3'- -GCAGUGGUGACGGa---AGCA------------ACUACGGC- -5'
miRNA: 3'- -GCAGUGGUGACGGaAGCaACuACGGC- -5'
miRNA: 3'- -GCAGUGGUGa--------CGGAAGCa-ACU---ACGGc -5'
miRNA: 3'- gCAGuGGuGACGGaaGCaACUACGGC- -5'
Results 21 - 25 of 25 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
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Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 10574 | 3' | -53.3 | NC_002687.1 | + | 208877 | 0.69 | 0.981298 |
|
Target: 5'- uCGUCGCUGCUGCUUccaUCGUcGcUGCUGu -3' miRNA: 3'- -GCAGUGGUGACGGA---AGCAaCuACGGC- -5' |
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| 10574 | 3' | -53.3 | NC_002687.1 | + | 208713 | 0.69 | 0.979219 |
|
Target: 5'- uCGUCGCUGCUGCUcccaUCGUccuugagguccuUGGUGUCGu -3' miRNA: 3'- -GCAGUGGUGACGGa---AGCA------------ACUACGGC- -5' |
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| 10574 | 3' | -53.3 | NC_002687.1 | + | 208566 | 0.7 | 0.966193 |
|
Target: 5'- uCGUCGCUGCUGCUgUCGcUGcUGCUGc -3' miRNA: 3'- -GCAGUGGUGACGGaAGCaACuACGGC- -5' |
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| 10574 | 3' | -53.3 | NC_002687.1 | + | 10722 | 0.7 | 0.956061 |
|
Target: 5'- cCGUCGCCGCagccacuccGCCUUCGgaUGAcacUGCCa -3' miRNA: 3'- -GCAGUGGUGa--------CGGAAGCa-ACU---ACGGc -5' |
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| 10574 | 3' | -53.3 | NC_002687.1 | + | 280690 | 0.66 | 0.997789 |
|
Target: 5'- aGUUcCC-CUGCCg-CG-UGAUGCCGg -3' miRNA: 3'- gCAGuGGuGACGGaaGCaACUACGGC- -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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