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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
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R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 21957 | 5' | -59.2 | NC_004914.1 | + | 7513 | 1.06 | 0.00054 |
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Target: 5'- uUUCCAGGCUUGCGCCAGCAUCCGGUCu -3' miRNA: 3'- -AAGGUCCGAACGCGGUCGUAGGCCAG- -5' |
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| 21957 | 5' | -59.2 | NC_004914.1 | + | 8574 | 0.66 | 0.501624 |
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Target: 5'- -gCCAGGCUgGCGCaggagAGCG-CCGGa- -3' miRNA: 3'- aaGGUCCGAaCGCGg----UCGUaGGCCag -5' |
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| 21957 | 5' | -59.2 | NC_004914.1 | + | 8663 | 0.66 | 0.481274 |
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Target: 5'- cUCCGGcGCUcuccUGCGCCAGC--CUGGcCu -3' miRNA: 3'- aAGGUC-CGA----ACGCGGUCGuaGGCCaG- -5' |
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| 21957 | 5' | -59.2 | NC_004914.1 | + | 9802 | 0.66 | 0.461333 |
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Target: 5'- gUCC-GGUgaugagUGCGCCAucuGUAUCCGGg- -3' miRNA: 3'- aAGGuCCGa-----ACGCGGU---CGUAGGCCag -5' |
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| 21957 | 5' | -59.2 | NC_004914.1 | + | 22962 | 0.69 | 0.328382 |
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Target: 5'- aUCCAGaGaauggaaccauucgUGCGCCAGCGcacCCGGUCc -3' miRNA: 3'- aAGGUC-Cga------------ACGCGGUCGUa--GGCCAG- -5' |
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| 21957 | 5' | -59.2 | NC_004914.1 | + | 25556 | 0.68 | 0.380999 |
|
Target: 5'- uUUCCuGGUccUUGCGCuCugcaaucguccgcauGGUAUCCGGUCu -3' miRNA: 3'- -AAGGuCCG--AACGCG-G---------------UCGUAGGCCAG- -5' |
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| 21957 | 5' | -59.2 | NC_004914.1 | + | 45094 | 0.68 | 0.377495 |
|
Target: 5'- cUCC-GGCuUUGCGCCAGaaCGUUCGGaUCu -3' miRNA: 3'- aAGGuCCG-AACGCGGUC--GUAGGCC-AG- -5' |
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| 21957 | 5' | -59.2 | NC_004914.1 | + | 62357 | 0.66 | 0.501624 |
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Target: 5'- -aCC-GGCgcaGCGCCAGUuguUCCGGa- -3' miRNA: 3'- aaGGuCCGaa-CGCGGUCGu--AGGCCag -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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