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miRNA: 3'- -GGAGG-UCGUgCGUCUCGuaGGUUGUu -5'
miRNA: 3'- gGAGG-UCGugCGUCUCGUa-GGUUguu -5'
miRNA: 3'- -GGAGGUCGUGCG------UCUCGUAGGu-UGUu -5'
miRNA: 3'- -GGAGGUCGUGCGUCUCGUAGGUUGUU- -5'
Results 21 - 24 of 24 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position |
R_P_ratio#
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P value |
| Predicted miRNA align pattern | |||||||
| 13282 | 5' | -54.3 | NC_003409.1 | + | 11012 | 0.71 | 0.695648 |
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Target: 5'- aCCUCCuAGCG-GCGGAGCc-CCAACAc -3' miRNA: 3'- -GGAGG-UCGUgCGUCUCGuaGGUUGUu -5' |
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| 13282 | 5' | -54.3 | NC_003409.1 | + | 14197 | 0.72 | 0.600771 |
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Target: 5'- gCUCCgAGCugGCAGAGCAccCCGAg-- -3' miRNA: 3'- gGAGG-UCGugCGUCUCGUa-GGUUguu -5' |
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| 13282 | 5' | -54.3 | NC_003409.1 | + | 105856 | 0.72 | 0.643064 |
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Target: 5'- aUCUCCAGUGCGCuuuccaGGAGCGUCUuuGCGu -3' miRNA: 3'- -GGAGGUCGUGCG------UCUCGUAGGu-UGUu -5' |
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| 13282 | 5' | -54.3 | NC_003409.1 | + | 31109 | 1.08 | 0.003765 |
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Target: 5'- gCCUCCAGCACGCAGAGCAUCCAACAAc -3' miRNA: 3'- -GGAGGUCGUGCGUCUCGUAGGUUGUU- -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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