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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 | |||||||
| 13361 | 5' | -51 | NC_003409.1 | + | 87873 | 0.66 | 0.985537 |
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Target: 5'- cUGUGCGACGcc--GGAGACC-CCUGa -3' miRNA: 3'- cAUAUGCUGUagcaCCUCUGGuGGAU- -5' |
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| 13361 | 5' | -51 | NC_003409.1 | + | 40151 | 0.67 | 0.981612 |
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Target: 5'- cGUGU-CGuCAUCGacGAGGCCGCCa- -3' miRNA: 3'- -CAUAuGCuGUAGCacCUCUGGUGGau -5' |
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| 13361 | 5' | -51 | NC_003409.1 | + | 132559 | 0.68 | 0.968372 |
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Target: 5'- aGUGccCGACAcgGUGGAGGCCAUCa- -3' miRNA: 3'- -CAUauGCUGUagCACCUCUGGUGGau -5' |
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| 13361 | 5' | -51 | NC_003409.1 | + | 103685 | 0.69 | 0.949459 |
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Target: 5'- ---aACGAUGgcCGUGGGGACCAgCUGg -3' miRNA: 3'- cauaUGCUGUa-GCACCUCUGGUgGAU- -5' |
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| 13361 | 5' | -51 | NC_003409.1 | + | 64063 | 0.71 | 0.877953 |
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Target: 5'- gGUGUcacCGACGUCGUGGAGGacuuugUCACCg- -3' miRNA: 3'- -CAUAu--GCUGUAGCACCUCU------GGUGGau -5' |
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| 13361 | 5' | -51 | NC_003409.1 | + | 52232 | 0.74 | 0.742804 |
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Target: 5'- -aGUGCGACuUUGUGGAcacgcuagaGGCCGCCUGu -3' miRNA: 3'- caUAUGCUGuAGCACCU---------CUGGUGGAU- -5' |
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| 13361 | 5' | -51 | NC_003409.1 | + | 32938 | 0.76 | 0.648083 |
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Target: 5'- -gAUGCGaACGUCGUGGGuGACC-CCUAg -3' miRNA: 3'- caUAUGC-UGUAGCACCU-CUGGuGGAU- -5' |
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| 13361 | 5' | -51 | NC_003409.1 | + | 11648 | 1.07 | 0.009485 |
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Target: 5'- cGUAUACGACAUCGUGGAGACCACCUAc -3' miRNA: 3'- -CAUAUGCUGUAGCACCUCUGGUGGAU- -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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