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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 | |||||||
| 22137 | 3' | -48.6 | NC_004927.1 | + | 46897 | 0.66 | 0.986838 |
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Target: 5'- --uUUGAcgACGGc---GAGGGCGCGGUc -3' miRNA: 3'- aauAACU--UGCCuacuUUCUCGCGCCA- -5' |
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| 22137 | 3' | -48.6 | NC_004927.1 | + | 46725 | 0.66 | 0.982903 |
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Target: 5'- ----gGGACGuGAUGAuugacGGGGCGUGGc -3' miRNA: 3'- aauaaCUUGC-CUACUu----UCUCGCGCCa -5' |
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| 22137 | 3' | -48.6 | NC_004927.1 | + | 450 | 0.67 | 0.97542 |
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Target: 5'- ----cGGACGGAcgGGGAGAGaCGgGGa -3' miRNA: 3'- aauaaCUUGCCUa-CUUUCUC-GCgCCa -5' |
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| 22137 | 3' | -48.6 | NC_004927.1 | + | 62913 | 0.67 | 0.969254 |
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Target: 5'- ----gGAAgGGGaauuUGuGAGAGCGCGGg -3' miRNA: 3'- aauaaCUUgCCU----ACuUUCUCGCGCCa -5' |
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| 22137 | 3' | -48.6 | NC_004927.1 | + | 75836 | 0.68 | 0.949197 |
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Target: 5'- ----gGGGCGGGggGAGAGAcggcccGCGCGGg -3' miRNA: 3'- aauaaCUUGCCUa-CUUUCU------CGCGCCa -5' |
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| 22137 | 3' | -48.6 | NC_004927.1 | + | 319 | 0.68 | 0.949197 |
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Target: 5'- ----gGGGCGGGggGAGAGAcggcccGCGCGGg -3' miRNA: 3'- aauaaCUUGCCUa-CUUUCU------CGCGCCa -5' |
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| 22137 | 3' | -48.6 | NC_004927.1 | + | 58936 | 0.72 | 0.81748 |
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Target: 5'- ---cUGccCGGAUGGAAG-GCGCGGg -3' miRNA: 3'- aauaACuuGCCUACUUUCuCGCGCCa -5' |
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| 22137 | 3' | -48.6 | NC_004927.1 | + | 60635 | 0.75 | 0.632709 |
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Target: 5'- -cGUUGAcCGGAUu-GAGAGCGCGGc -3' miRNA: 3'- aaUAACUuGCCUAcuUUCUCGCGCCa -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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