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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 | |||||||
| 32001 | 3' | -54.8 | NC_006949.1 | + | 4786 | 0.66 | 0.674698 |
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Target: 5'- cGCAG-GCCauaUCGGCGCgugGAaCCGCa -3' miRNA: 3'- -CGUCaCGG---AGUCGCGaaaCUcGGUGg -5' |
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| 32001 | 3' | -54.8 | NC_006949.1 | + | 2695 | 0.66 | 0.652257 |
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Target: 5'- ----cGCCUCAGCGaa-UGAG-CGCCa -3' miRNA: 3'- cgucaCGGAGUCGCgaaACUCgGUGG- -5' |
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| 32001 | 3' | -54.8 | NC_006949.1 | + | 16275 | 0.66 | 0.641002 |
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Target: 5'- aGCAGaUGCggCGGCGgUUgccUGGGCCAUg -3' miRNA: 3'- -CGUC-ACGgaGUCGCgAA---ACUCGGUGg -5' |
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| 32001 | 3' | -54.8 | NC_006949.1 | + | 14358 | 0.67 | 0.618478 |
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Target: 5'- aGCAGacgGCggUUAGCGCgaUGAauGCCGCCg -3' miRNA: 3'- -CGUCa--CGg-AGUCGCGaaACU--CGGUGG- -5' |
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| 32001 | 3' | -54.8 | NC_006949.1 | + | 25928 | 0.67 | 0.596003 |
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Target: 5'- cGCAGccaucguaUGCaagaAGUGCUUUGguaGGCCGCCu -3' miRNA: 3'- -CGUC--------ACGgag-UCGCGAAAC---UCGGUGG- -5' |
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| 32001 | 3' | -54.8 | NC_006949.1 | + | 24997 | 0.67 | 0.584809 |
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Target: 5'- uGCcGUGCCUCGuGuUGCUUUGAacauggucacgGCUGCCu -3' miRNA: 3'- -CGuCACGGAGU-C-GCGAAACU-----------CGGUGG- -5' |
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| 32001 | 3' | -54.8 | NC_006949.1 | + | 18737 | 0.69 | 0.49744 |
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Target: 5'- uCGGUGUCgcCAGCGUgua-GGCCACCu -3' miRNA: 3'- cGUCACGGa-GUCGCGaaacUCGGUGG- -5' |
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| 32001 | 3' | -54.8 | NC_006949.1 | + | 25111 | 1.15 | 0.000297 |
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Target: 5'- cGCAGUGCCUCAGCGCUUUGAGCCACCa -3' miRNA: 3'- -CGUCACGGAGUCGCGAAACUCGGUGG- -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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