miRNA: 3'- cagaCUau-UGAGACCUC-CGgUCCGGa -5'
miRNA: 3'- -CAGACua--UUGaGACC-UCCGGU-CCGGa -5'
miRNA: 3'- caGACUAUUgAGACC--UCCGGuCCGGa -5'
miRNA: 3'- caGACUauugaGACCUCCGGuCCGGA- -5'
miRNA: 3'- -CAGACUAUUGAGACCUCCGGUCCGGA- -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 | |||||||
| 9447 | 3' | -55.6 | NC_002531.1 | + | 82437 | 0.66 | 0.863671 |
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Target: 5'- ---aGAgacACUCUGGAGuGUgAGGCCg -3' miRNA: 3'- cagaCUau-UGAGACCUC-CGgUCCGGa -5' |
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| 9447 | 3' | -55.6 | NC_002531.1 | + | 95671 | 0.68 | 0.756801 |
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Target: 5'- uGUCUGuuugGGC-CUGGaAGGCCAuGGCUg -3' miRNA: 3'- -CAGACua--UUGaGACC-UCCGGU-CCGGa -5' |
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| 9447 | 3' | -55.6 | NC_002531.1 | + | 70725 | 0.68 | 0.746912 |
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Target: 5'- -gCUGAUGA-UCUGGuaAGGCC-GGCCa -3' miRNA: 3'- caGACUAUUgAGACC--UCCGGuCCGGa -5' |
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| 9447 | 3' | -55.6 | NC_002531.1 | + | 103431 | 0.71 | 0.580854 |
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Target: 5'- -cCUGGg----CUGGAGGCCuGGCCUc -3' miRNA: 3'- caGACUauugaGACCUCCGGuCCGGA- -5' |
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| 9447 | 3' | -55.6 | NC_002531.1 | + | 103597 | 1.07 | 0.003105 |
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Target: 5'- gGUCUGAUAACUCUGGAGGCCAGGCCUc -3' miRNA: 3'- -CAGACUAUUGAGACCUCCGGUCCGGA- -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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