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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 | |||||||
| 31921 | 3' | -48.6 | NC_006940.1 | + | 20695 | 0.66 | 0.948852 |
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Target: 5'- -cGUGGGGCUU-CCAGCCG---UUCGa -3' miRNA: 3'- gaCAUCUUGAAuGGUCGGUcuuAGGC- -5' |
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| 31921 | 3' | -48.6 | NC_006940.1 | + | 19150 | 0.67 | 0.923002 |
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Target: 5'- -gGUAGAGCUUACCguggcgguacAagcggcgguaauguaGCCGGggUCUGu -3' miRNA: 3'- gaCAUCUUGAAUGG----------U---------------CGGUCuuAGGC- -5' |
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| 31921 | 3' | -48.6 | NC_006940.1 | + | 38605 | 0.71 | 0.712641 |
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Target: 5'- --cUAGAGC-UACCAGCUuacGGAAUCCu -3' miRNA: 3'- gacAUCUUGaAUGGUCGG---UCUUAGGc -5' |
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| 31921 | 3' | -48.6 | NC_006940.1 | + | 33083 | 0.72 | 0.654131 |
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Target: 5'- -cGUAGAGCUaucCCAGCCGGuuaaguucacAUCCGg -3' miRNA: 3'- gaCAUCUUGAau-GGUCGGUCu---------UAGGC- -5' |
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| 31921 | 3' | -48.6 | NC_006940.1 | + | 4881 | 0.99 | 0.016581 |
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Target: 5'- aCUGUAGAACUUACC-GCCAGAAUCCGu -3' miRNA: 3'- -GACAUCUUGAAUGGuCGGUCUUAGGC- -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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