miRNA: 3'- cacuCCG--CCUCuGCCCCGUUCGagGC- -5'
miRNA: 3'- cACUCCGCCU---CUGC-CCCGU-UCGaG-GC- -5'
miRNA: 3'- caCUCC---------GCCU----CUGCCCCGU----------UCGAGGc -5'
miRNA: 3'- cACUCcg-CCUCUGCCCCGUUCGaGGC- -5'
miRNA: 3'- -CACUCCGCCUCUGCCCCGUUCGAGGC- -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 | |||||||
| 7168 | 3' | -60.6 | NC_001900.1 | + | 1134 | 0.66 | 0.416199 |
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Target: 5'- ---cGGCaaGGAGcCGGGGCAGGCggCGu -3' miRNA: 3'- cacuCCG--CCUCuGCCCCGUUCGagGC- -5' |
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| 7168 | 3' | -60.6 | NC_001900.1 | + | 6252 | 0.66 | 0.38923 |
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Target: 5'- cUGGGGCGGGaucGACGcGGGCGcAGC-CgCGa -3' miRNA: 3'- cACUCCGCCU---CUGC-CCCGU-UCGaG-GC- -5' |
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| 7168 | 3' | -60.6 | NC_001900.1 | + | 13480 | 0.68 | 0.315484 |
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Target: 5'- -gGAGGgcuaccucuCGGAgaccGACGGGGCGuacaccuaccAGCUCCa -3' miRNA: 3'- caCUCC---------GCCU----CUGCCCCGU----------UCGAGGc -5' |
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| 7168 | 3' | -60.6 | NC_001900.1 | + | 7360 | 0.71 | 0.19554 |
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Target: 5'- cUGAGaaaGGAGGCGGGGUGAGCcUCGa -3' miRNA: 3'- cACUCcg-CCUCUGCCCCGUUCGaGGC- -5' |
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| 7168 | 3' | -60.6 | NC_001900.1 | + | 41664 | 1.08 | 0.000278 |
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Target: 5'- uGUGAGGCGGAGACGGGGCAAGCUCCGg -3' miRNA: 3'- -CACUCCGCCUCUGCCCCGUUCGAGGC- -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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