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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 | |||||||
| 28530 | 5' | -57.1 | NC_005946.1 | + | 59507 | 0.66 | 0.733298 |
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Target: 5'- uGUgGUGGggUCCagGCCcgaggccuUGGCGUCUc -3' miRNA: 3'- -CAgCACCuuGGGagCGG--------ACCGUAGAu -5' |
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| 28530 | 5' | -57.1 | NC_005946.1 | + | 99617 | 0.67 | 0.681853 |
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Target: 5'- aGUC-UGGGcuGCUCUCcCCUGGCGUCg- -3' miRNA: 3'- -CAGcACCU--UGGGAGcGGACCGUAGau -5' |
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| 28530 | 5' | -57.1 | NC_005946.1 | + | 90973 | 0.68 | 0.618778 |
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Target: 5'- cUCGUGGuuCCCUuccuaccccUGCCUccGGCGUCUGu -3' miRNA: 3'- cAGCACCuuGGGA---------GCGGA--CCGUAGAU- -5' |
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| 28530 | 5' | -57.1 | NC_005946.1 | + | 56008 | 0.69 | 0.595647 |
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Target: 5'- uGUCGUGGucCCCUUGUagagcuuucucaUGGCGUCUu -3' miRNA: 3'- -CAGCACCuuGGGAGCGg-----------ACCGUAGAu -5' |
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| 28530 | 5' | -57.1 | NC_005946.1 | + | 27933 | 0.77 | 0.221886 |
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Target: 5'- -gCGUGGuccugcacGCUCUCGCCUGGCAUCc- -3' miRNA: 3'- caGCACCu-------UGGGAGCGGACCGUAGau -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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