miRNA: 3'- caAGGUAgCUUCGcCUUGagGAGCAG- -5'
miRNA: 3'- caAGGUaGCUUCGCCUUg---AGGAGcAG- -5'
miRNA: 3'- -CAAGGUAGCUUCG--CCUUGAGG-AGcag -5'
miRNA: 3'- caaGGUAGCuuCG--CCUUGAGGAGCag -5'
miRNA: 3'- -CAAGGUAGCUUCGCCUUGAGGAGCAG- -5'
Results 1 - 5 of 5 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 | |||||||
| 13024 | 5' | -52.1 | NC_003390.1 | + | 25812 | 0.67 | 0.760541 |
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Target: 5'- -gUCCAUaGGAGCaGAACg-CUCGUCg -3' miRNA: 3'- caAGGUAgCUUCGcCUUGagGAGCAG- -5' |
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| 13024 | 5' | -52.1 | NC_003390.1 | + | 44406 | 0.68 | 0.739103 |
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Target: 5'- -aUUCA-CGAAGCGGAGagcaUCCUCuUCa -3' miRNA: 3'- caAGGUaGCUUCGCCUUg---AGGAGcAG- -5' |
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| 13024 | 5' | -52.1 | NC_003390.1 | + | 17246 | 0.72 | 0.493573 |
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Target: 5'- gGUUCCAUCGAAGUauGGGACUUCaUCa-- -3' miRNA: 3'- -CAAGGUAGCUUCG--CCUUGAGG-AGcag -5' |
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| 13024 | 5' | -52.1 | NC_003390.1 | + | 10789 | 0.79 | 0.189442 |
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Target: 5'- --gCCGUCGggGCcaGGGGCUCCUCGg- -3' miRNA: 3'- caaGGUAGCuuCG--CCUUGAGGAGCag -5' |
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| 13024 | 5' | -52.1 | NC_003390.1 | + | 14113 | 1.11 | 0.001315 |
|
Target: 5'- aGUUCCAUCGAAGCGGAACUCCUCGUCa -3' miRNA: 3'- -CAAGGUAGCUUCGCCUUGAGGAGCAG- -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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