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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 | |||||||
| 31606 | 5' | -52.8 | NC_006879.1 | + | 24790 | 0.67 | 0.718427 |
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Target: 5'- --cAUCUCCUuugcccgacgcuaccUCCUCUUCCAUcaCGGu -3' miRNA: 3'- agaUAGAGGA---------------AGGGGAAGGUGcaGCC- -5' |
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| 31606 | 5' | -52.8 | NC_006879.1 | + | 11318 | 0.68 | 0.646042 |
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Target: 5'- cCUGcCUCCUccaaaucgUCCCgaUCCuccuCGUCGGg -3' miRNA: 3'- aGAUaGAGGA--------AGGGgaAGGu---GCAGCC- -5' |
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| 31606 | 5' | -52.8 | NC_006879.1 | + | 19528 | 0.68 | 0.634602 |
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Target: 5'- gUCUAcuccggCUCCaUCCCCUaCCugGaCGGc -3' miRNA: 3'- -AGAUa-----GAGGaAGGGGAaGGugCaGCC- -5' |
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| 31606 | 5' | -52.8 | NC_006879.1 | + | 9825 | 0.68 | 0.634602 |
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Target: 5'- cCUGUCccCCggcgCCCCcgCCACaGUCGGc -3' miRNA: 3'- aGAUAGa-GGaa--GGGGaaGGUG-CAGCC- -5' |
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| 31606 | 5' | -52.8 | NC_006879.1 | + | 1109 | 1.12 | 0.000694 |
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Target: 5'- aUCUAUCUCCUUCCCCUUCCACGUCGGa -3' miRNA: 3'- -AGAUAGAGGAAGGGGAAGGUGCAGCC- -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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