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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 | |||||||
| 30929 | 3' | -52.5 | NC_006552.1 | + | 25369 | 0.69 | 0.65396 |
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Target: 5'- -uCUCCGAGGCCaccgcGGCGAAGUuaGCa- -3' miRNA: 3'- auGAGGUUCCGG-----UCGUUUUAcgCGac -5' |
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| 30929 | 3' | -52.5 | NC_006552.1 | + | 32653 | 0.69 | 0.687948 |
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Target: 5'- cGCUCCugcuGGGCCuGCuGAGccUGCGCg- -3' miRNA: 3'- aUGAGGu---UCCGGuCGuUUU--ACGCGac -5' |
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| 30929 | 3' | -52.5 | NC_006552.1 | + | 13899 | 0.68 | 0.732399 |
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Target: 5'- uUGCUCCAcGGCCgccugcugAGCAucGGUGCGUg- -3' miRNA: 3'- -AUGAGGUuCCGG--------UCGUu-UUACGCGac -5' |
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| 30929 | 3' | -52.5 | NC_006552.1 | + | 18042 | 0.68 | 0.751889 |
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Target: 5'- aUAC-CCAcaucaggcguucGGGCCAGCAGGuucuccacugcGCGCUGg -3' miRNA: 3'- -AUGaGGU------------UCCGGUCGUUUua---------CGCGAC- -5' |
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| 30929 | 3' | -52.5 | NC_006552.1 | + | 62658 | 0.68 | 0.75296 |
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Target: 5'- cACcCCGAGGCCuucaccaagauccAGCAg---GCGCUGg -3' miRNA: 3'- aUGaGGUUCCGG-------------UCGUuuuaCGCGAC- -5' |
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| 30929 | 3' | -52.5 | NC_006552.1 | + | 15617 | 0.67 | 0.795589 |
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Target: 5'- aGCUCaacccGGCCAGCGGcguucuGGUgGCGCUGc -3' miRNA: 3'- aUGAGguu--CCGGUCGUU------UUA-CGCGAC- -5' |
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| 30929 | 3' | -52.5 | NC_006552.1 | + | 41535 | 0.67 | 0.795589 |
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Target: 5'- cUGCUaCCAcucGCCGGCAuAGUGUGCUc -3' miRNA: 3'- -AUGA-GGUuc-CGGUCGUuUUACGCGAc -5' |
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| 30929 | 3' | -52.5 | NC_006552.1 | + | 19582 | 0.66 | 0.84063 |
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Target: 5'- cUGCcCCAGGGCCuucgccgccuccagAGCGAucUGCGCc- -3' miRNA: 3'- -AUGaGGUUCCGG--------------UCGUUuuACGCGac -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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