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miRNA: 3'- gaCCGGCu--UCGGUGCGa------CGCGGC--CCA- -5'
miRNA: 3'- gaCCGG-CUU-CGGUGCGACGc------GGCCCa -5'
miRNA: 3'- gaCCGGC-UUCGGUG--CGa-CGCGGCCCa -5'
miRNA: 3'- -GACCGGCuUCGGUGcGaCGCGGCCca -5'
miRNA: 3'- -GACCGGCUUCGGUGCGACGCGGCCCA- -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#
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P value |
| Predicted miRNA align pattern | |||||||
| 30706 | 5' | -63 | NC_006552.1 | + | 38736 | 0.7 | 0.207381 |
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Target: 5'- -gGGCCGcgcAGCCACGCcacagccGCGCCGuaGGUg -3' miRNA: 3'- gaCCGGCu--UCGGUGCGa------CGCGGC--CCA- -5' |
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| 30706 | 5' | -63 | NC_006552.1 | + | 31979 | 0.71 | 0.178079 |
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Target: 5'- -cGGCCaGGAuGCCGCGCUGCaugucuuCCGGGc -3' miRNA: 3'- gaCCGG-CUU-CGGUGCGACGc------GGCCCa -5' |
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| 30706 | 5' | -63 | NC_006552.1 | + | 40476 | 0.73 | 0.126925 |
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Target: 5'- -gGGUCGuAGGCCACcaGCcgGCGCCGGGc -3' miRNA: 3'- gaCCGGC-UUCGGUG--CGa-CGCGGCCCa -5' |
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| 30706 | 5' | -63 | NC_006552.1 | + | 61618 | 0.73 | 0.111144 |
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Target: 5'- gCUGGCCG-AGCCGC-CgGCGCCGGc- -3' miRNA: 3'- -GACCGGCuUCGGUGcGaCGCGGCCca -5' |
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| 30706 | 5' | -63 | NC_006552.1 | + | 6997 | 1.07 | 0.0003 |
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Target: 5'- cCUGGCCGAAGCCACGCUGCGCCGGGUg -3' miRNA: 3'- -GACCGGCUUCGGUGCGACGCGGCCCA- -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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