miRNA: 3'- aCCG--AUCUGCGGaaGCAGCUugCGaa -5'
miRNA: 3'- aCCGAUCUGCGGaaGCAGCUU----GCGAa -5'
miRNA: 3'- -ACCGAUCUGCGGAAGCAGCUUGCGAA- -5'
Results 1 - 3 of 3 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 | |||||||
| 27422 | 5' | -54.4 | NC_005869.1 | + | 10025 | 0.66 | 0.575106 |
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Target: 5'- cGGUggUAGGCGCCcgUGUUGAugGUg- -3' miRNA: 3'- aCCG--AUCUGCGGaaGCAGCUugCGaa -5' |
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| 27422 | 5' | -54.4 | NC_005869.1 | + | 11660 | 0.78 | 0.107647 |
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Target: 5'- gGGCUGGACGUCggCGUCGAAgagcCGCUc -3' miRNA: 3'- aCCGAUCUGCGGaaGCAGCUU----GCGAa -5' |
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| 27422 | 5' | -54.4 | NC_005869.1 | + | 24400 | 1.05 | 0.001143 |
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Target: 5'- cUGGCUAGACGCCUUCGUCGAACGCUUc -3' miRNA: 3'- -ACCGAUCUGCGGAAGCAGCUUGCGAA- -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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