miRNA: 3'- -GCAGCUugAuGCUa-GGACU-----------CUGCGCG- -5'
miRNA: 3'- -GCAG-CUUGa---UGCuAGGa-CUCUGCGCG- -5'
miRNA: 3'- -GCa--GCUUGaugCUAGGa----CUCUGCGCG- -5'
miRNA: 3'- -GCAGCUUGau-----GCUAGGac-UCUGCGCG- -5'
miRNA: 3'- -GCAgCUUGAUGCUAGGACUCUGCGCG- -5'
Results 21 - 25 of 25 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 | |||||||
| 33067 | 3' | -51.7 | NC_007497.1 | + | 42473 | 0.7 | 0.644943 |
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Target: 5'- uCGUCGGugU-CGAggCCUGAaaugacggcucGACGUGCg -3' miRNA: 3'- -GCAGCUugAuGCUa-GGACU-----------CUGCGCG- -5' |
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| 33067 | 3' | -51.7 | NC_007497.1 | + | 34251 | 0.73 | 0.51169 |
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Target: 5'- aCGUCgGAACgaugACGcUCUgcGAGGCGCGCg -3' miRNA: 3'- -GCAG-CUUGa---UGCuAGGa-CUCUGCGCG- -5' |
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| 33067 | 3' | -51.7 | NC_007497.1 | + | 38209 | 0.74 | 0.449205 |
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Target: 5'- cCGgcgCGAACgu-GAUCCgggacGAGGCGCGCg -3' miRNA: 3'- -GCa--GCUUGaugCUAGGa----CUCUGCGCG- -5' |
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| 33067 | 3' | -51.7 | NC_007497.1 | + | 15360 | 0.75 | 0.409967 |
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Target: 5'- uCGUCGAGCauccaguCGAUCCacuGGAUGCGCg -3' miRNA: 3'- -GCAGCUUGau-----GCUAGGac-UCUGCGCG- -5' |
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| 33067 | 3' | -51.7 | NC_007497.1 | + | 27894 | 1.01 | 0.007886 |
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Target: 5'- cCGU-GAACUACGAUCCUGAGACGCGCa -3' miRNA: 3'- -GCAgCUUGAUGCUAGGACUCUGCGCG- -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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