miRNA: 3'- -CGGG-CGCGCUUGCGGGU---CCGUc-UUGA- -5'
miRNA: 3'- cgGGCGCGCuuGCG-GGucCGUCUUGA- -5'
miRNA: 3'- -CGGgCgCGCuUGCGGGUCCG----UCUUga -5'
miRNA: 3'- cGGGCGCGCuug--CGGGUC--CGUCUUGa -5'
miRNA: 3'- -CGGGCGCGCUUGCGGGUCCGUCUUGA- -5'
Results 41 - 45 of 45 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 | |||||||
| 31747 | 5' | -59.5 | NC_006938.1 | + | 50698 | 0.72 | 0.22361 |
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Target: 5'- uGUCCgGUGCGAGCGCCCAagaGGCAcaGGCUg -3' miRNA: 3'- -CGGG-CGCGCUUGCGGGU---CCGUc-UUGA- -5' |
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| 31747 | 5' | -59.5 | NC_006938.1 | + | 36497 | 0.72 | 0.218003 |
|
Target: 5'- -aCCGCGUGggUGCgCCucGCAGAACUc -3' miRNA: 3'- cgGGCGCGCuuGCG-GGucCGUCUUGA- -5' |
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| 31747 | 5' | -59.5 | NC_006938.1 | + | 56509 | 0.72 | 0.218003 |
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Target: 5'- aGCCgGgGCG-ACGCCCAGGCuggcGGAAg- -3' miRNA: 3'- -CGGgCgCGCuUGCGGGUCCG----UCUUga -5' |
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| 31747 | 5' | -59.5 | NC_006938.1 | + | 1279 | 0.73 | 0.207149 |
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Target: 5'- aCCUGCGCGucgaaGCCCAGgaGCAGGGCa -3' miRNA: 3'- cGGGCGCGCuug--CGGGUC--CGUCUUGa -5' |
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| 31747 | 5' | -59.5 | NC_006938.1 | + | 33442 | 1.08 | 0.000528 |
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Target: 5'- uGCCCGCGCGAACGCCCAGGCAGAACUc -3' miRNA: 3'- -CGGGCGCGCUUGCGGGUCCGUCUUGA- -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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