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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 | |||||||
| 30487 | 3' | -52.8 | NC_006548.1 | + | 6597 | 0.66 | 0.741507 |
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Target: 5'- gCUCUugcauggccUCGAucagcACCGUGCAGAaguUCUCGC-Ca -3' miRNA: 3'- -GAGA---------AGCU-----UGGCACGUCU---AGGGUGcG- -5' |
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| 30487 | 3' | -52.8 | NC_006548.1 | + | 36283 | 0.67 | 0.730595 |
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Target: 5'- uCUCgcggCGGcACUGagcgaUGCAGAUCUgGCGCa -3' miRNA: 3'- -GAGaa--GCU-UGGC-----ACGUCUAGGgUGCG- -5' |
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| 30487 | 3' | -52.8 | NC_006548.1 | + | 12120 | 0.67 | 0.719577 |
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Target: 5'- uCUCgUCGGccaagGCCGaUG-AGAUCCCGCGg -3' miRNA: 3'- -GAGaAGCU-----UGGC-ACgUCUAGGGUGCg -5' |
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| 30487 | 3' | -52.8 | NC_006548.1 | + | 29218 | 0.67 | 0.697275 |
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Target: 5'- gUCggCGGuagACCGaUGCAGGUCuagcaguugcugCCGCGCg -3' miRNA: 3'- gAGaaGCU---UGGC-ACGUCUAG------------GGUGCG- -5' |
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| 30487 | 3' | -52.8 | NC_006548.1 | + | 15385 | 0.67 | 0.686015 |
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Target: 5'- uUCUUCGGAUUGccGCccucuacGAUCUCGCGCa -3' miRNA: 3'- gAGAAGCUUGGCa-CGu------CUAGGGUGCG- -5' |
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| 30487 | 3' | -52.8 | NC_006548.1 | + | 25540 | 0.7 | 0.549857 |
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Target: 5'- cCUCggUCGAAUgaCGgaacgGCAGAUCCUACuGCu -3' miRNA: 3'- -GAGa-AGCUUG--GCa----CGUCUAGGGUG-CG- -5' |
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| 30487 | 3' | -52.8 | NC_006548.1 | + | 18646 | 0.71 | 0.484472 |
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Target: 5'- ----aUGAcuGCCGUGCGGGcUUCCACGCc -3' miRNA: 3'- gagaaGCU--UGGCACGUCU-AGGGUGCG- -5' |
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| 30487 | 3' | -52.8 | NC_006548.1 | + | 36462 | 1.03 | 0.003177 |
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Target: 5'- gCUCUUCGAACCGUGCAGA-CCCACGCg -3' miRNA: 3'- -GAGAAGCUUGGCACGUCUaGGGUGCG- -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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