miRNA: 3'- -CCGuuUGACUGacUGG--ACGUC-GGGCG- -5'
miRNA: 3'- -CCGuu--UGACuGAC--UGGACGu-----CGG-GCG- -5'
miRNA: 3'- -CCGUUUGa--CUG-----ACUGGaCGUCGggCg -5'
miRNA: 3'- -CCGUUU----------GACUGACUGgaCGu------CGGGCG- -5'
Results 41 - 44 of 44 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 | |||||||
| 12343 | 5' | -54.8 | NC_003324.1 | + | 42487 | 0.66 | 0.752962 |
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Target: 5'- uGGC--GCUGGC--GCUguUGCGGaCCCGCg -3' miRNA: 3'- -CCGuuUGACUGacUGG--ACGUC-GGGCG- -5' |
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| 12343 | 5' | -54.8 | NC_003324.1 | + | 35372 | 0.66 | 0.763279 |
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Target: 5'- cGGCcuguGCUG-CUGcaGCCUGCucggccGCCgCGCg -3' miRNA: 3'- -CCGuu--UGACuGAC--UGGACGu-----CGG-GCG- -5' |
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| 12343 | 5' | -54.8 | NC_003324.1 | + | 51512 | 0.66 | 0.763279 |
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Target: 5'- gGGCAGACgagGACgaacaUGGCCgGUGGCuuGg -3' miRNA: 3'- -CCGUUUGa--CUG-----ACUGGaCGUCGggCg -5' |
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| 12343 | 5' | -54.8 | NC_003324.1 | + | 29175 | 0.66 | 0.763279 |
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Target: 5'- cGGCAGAgcgcaagcguCUGGCUGACgaGUucggcguGUCCGUc -3' miRNA: 3'- -CCGUUU----------GACUGACUGgaCGu------CGGGCG- -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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