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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 | |||||||
| 19697 | 3' | -54.9 | NC_004686.1 | + | 4189 | 0.66 | 0.747865 |
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Target: 5'- uGGGgcgugGUUCCcACUGCGCGGUcagggugucgauGUCGCGg -3' miRNA: 3'- -CCUa----CGAGGcUGGCGUGUCA------------CAGUGC- -5' |
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| 19697 | 3' | -54.9 | NC_004686.1 | + | 21825 | 0.69 | 0.597039 |
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Target: 5'- cGGGUGCgccUCGGCgGCGCGGg--CGCGg -3' miRNA: 3'- -CCUACGa--GGCUGgCGUGUCacaGUGC- -5' |
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| 19697 | 3' | -54.9 | NC_004686.1 | + | 15915 | 0.69 | 0.575344 |
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Target: 5'- cGGGUaCUggCCGGCCGCugAG-GUCACc -3' miRNA: 3'- -CCUAcGA--GGCUGGCGugUCaCAGUGc -5' |
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| 19697 | 3' | -54.9 | NC_004686.1 | + | 27681 | 0.7 | 0.532567 |
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Target: 5'- cGGUGgUCCGACCGCgauccugacGCGGgugcUGUCGCu -3' miRNA: 3'- cCUACgAGGCUGGCG---------UGUC----ACAGUGc -5' |
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| 19697 | 3' | -54.9 | NC_004686.1 | + | 49777 | 0.71 | 0.449994 |
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Target: 5'- ---aGCUCCGAaguacaucgaaucCCGCugGGUGUCGgGa -3' miRNA: 3'- ccuaCGAGGCU-------------GGCGugUCACAGUgC- -5' |
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| 19697 | 3' | -54.9 | NC_004686.1 | + | 39642 | 1.12 | 0.000749 |
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Target: 5'- cGGAUGCUCCGACCGCACAGUGUCACGg -3' miRNA: 3'- -CCUACGAGGCUGGCGUGUCACAGUGC- -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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