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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 | |||||||
| 12427 | 5' | -57.3 | NC_003324.1 | + | 16142 | 0.67 | 0.499303 |
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Target: 5'- cGGUaGCGGG-GGCCGCG-CCaGGCAu- -3' miRNA: 3'- uCCA-CGCCUaCUGGUGCuGG-CCGUuu -5' |
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| 12427 | 5' | -57.3 | NC_003324.1 | + | 42644 | 0.68 | 0.493137 |
|
Target: 5'- cGGGcGCGGAUcugcaacagcaaGGCCAUucgccgggccaccagGACCGGCAAc -3' miRNA: 3'- -UCCaCGCCUA------------CUGGUG---------------CUGGCCGUUu -5' |
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| 12427 | 5' | -57.3 | NC_003324.1 | + | 11233 | 0.7 | 0.374904 |
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Target: 5'- -uGUGCGaGccGGCCGCcaGACCGGCGAAg -3' miRNA: 3'- ucCACGC-CuaCUGGUG--CUGGCCGUUU- -5' |
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| 12427 | 5' | -57.3 | NC_003324.1 | + | 57385 | 0.71 | 0.294554 |
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Target: 5'- gAGGgcucgGCGGAggcgagGGCggCACGACCGGCGu- -3' miRNA: 3'- -UCCa----CGCCUa-----CUG--GUGCUGGCCGUuu -5' |
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| 12427 | 5' | -57.3 | NC_003324.1 | + | 18142 | 0.72 | 0.287301 |
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Target: 5'- gAGGUGUGGA--ACCGCGAagugaCGGCAc- -3' miRNA: 3'- -UCCACGCCUacUGGUGCUg----GCCGUuu -5' |
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| 12427 | 5' | -57.3 | NC_003324.1 | + | 11182 | 1.06 | 0.000935 |
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Target: 5'- gAGGUGCGGAUGACCACGACCGGCAAAa -3' miRNA: 3'- -UCCACGCCUACUGGUGCUGGCCGUUU- -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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