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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
20427 | 3' | -52.4 | NC_004688.1 | + | 48243 | 0.66 | 0.932435 |
Target: 5'- cGGCggCgACCGCUCGGuCCAccuggacuugUUCUCUGa -3' miRNA: 3'- -UUGaaG-UGGCGAGCC-GGUa---------AAGAGAU- -5' |
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20427 | 3' | -52.4 | NC_004688.1 | + | 16486 | 0.66 | 0.932435 |
Target: 5'- aAGCUUCACCGg-CGGCCAgagagUUCcCg- -3' miRNA: 3'- -UUGAAGUGGCgaGCCGGUa----AAGaGau -5' |
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20427 | 3' | -52.4 | NC_004688.1 | + | 13803 | 0.71 | 0.73238 |
Target: 5'- gGAUUUCGCCGC--GGCCAUacUUCUCg- -3' miRNA: 3'- -UUGAAGUGGCGagCCGGUA--AAGAGau -5' |
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20427 | 3' | -52.4 | NC_004688.1 | + | 53601 | 0.71 | 0.700453 |
Target: 5'- ----cCACCGCUCGGCCGccUUCUUg- -3' miRNA: 3'- uugaaGUGGCGAGCCGGUa-AAGAGau -5' |
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20427 | 3' | -52.4 | NC_004688.1 | + | 15730 | 1.04 | 0.006736 |
Target: 5'- aAACUUCACCGCUCGGCCAUUUCUCUAu -3' miRNA: 3'- -UUGAAGUGGCGAGCCGGUAAAGAGAU- -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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