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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 | |||||||
| 31625 | 3' | -53.9 | NC_006879.1 | + | 11648 | 0.66 | 0.632073 |
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Target: 5'- aGCccGCCUCgucgcggcgGAUGGCCUuGCUGUc- -3' miRNA: 3'- -CGuuUGGAGa--------CUGCCGGGuCGACAag -5' |
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| 31625 | 3' | -53.9 | NC_006879.1 | + | 23243 | 0.66 | 0.59732 |
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Target: 5'- cGCAAGaugaugaUGGCGGCCguGCUGgUCa -3' miRNA: 3'- -CGUUUggag---ACUGCCGGguCGACaAG- -5' |
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| 31625 | 3' | -53.9 | NC_006879.1 | + | 15030 | 0.67 | 0.585787 |
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Target: 5'- gGCccGCCUCaGcACGGCCCuGGCUGc-- -3' miRNA: 3'- -CGuuUGGAGaC-UGCCGGG-UCGACaag -5' |
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| 31625 | 3' | -53.9 | NC_006879.1 | + | 11961 | 0.67 | 0.585787 |
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Target: 5'- uGCAAGCCcugucgggacgUCUGGaagaaguaaucCGGCCCAGaCUGa-- -3' miRNA: 3'- -CGUUUGG-----------AGACU-----------GCCGGGUC-GACaag -5' |
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| 31625 | 3' | -53.9 | NC_006879.1 | + | 10726 | 1.11 | 0.00047 |
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Target: 5'- aGCAAACCUCUGACGGCCCAGCUGUUCc -3' miRNA: 3'- -CGUUUGGAGACUGCCGGGUCGACAAG- -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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