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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
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Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 21921 | 5' | -57.4 | NC_004913.1 | + | 11587 | 0.71 | 0.296746 |
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Target: 5'- aGGCCUGUcauauucUCUgGCGGCGGCAGGUa- -3' miRNA: 3'- aUUGGACG-------AGGgUGUCGCCGUUCGcg -5' |
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| 21921 | 5' | -57.4 | NC_004913.1 | + | 26456 | 1.1 | 0.000414 |
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Target: 5'- aUAACCUGCUCCCACAGCGGCAAGCGCg -3' miRNA: 3'- -AUUGGACGAGGGUGUCGCCGUUCGCG- -5' |
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| 21921 | 5' | -57.4 | NC_004913.1 | + | 16845 | 0.73 | 0.224494 |
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Target: 5'- uUGGCgCUGgUCUgGguGCGGCAGGUGCa -3' miRNA: 3'- -AUUG-GACgAGGgUguCGCCGUUCGCG- -5' |
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| 21921 | 5' | -57.4 | NC_004913.1 | + | 7018 | 0.69 | 0.378705 |
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Target: 5'- -uGCCUGUUCUCcCGGUgaGGUGAGCGUg -3' miRNA: 3'- auUGGACGAGGGuGUCG--CCGUUCGCG- -5' |
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| 21921 | 5' | -57.4 | NC_004913.1 | + | 39100 | 0.69 | 0.387604 |
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Target: 5'- cAGCCaGCuUCCCugcCAGCGuuGCGAGUGCu -3' miRNA: 3'- aUUGGaCG-AGGGu--GUCGC--CGUUCGCG- -5' |
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| 21921 | 5' | -57.4 | NC_004913.1 | + | 47 | 0.66 | 0.546471 |
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Target: 5'- -cGCCUGCauaUCUCAgAGCacGGCAAaauuuGCGCg -3' miRNA: 3'- auUGGACG---AGGGUgUCG--CCGUU-----CGCG- -5' |
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| 21921 | 5' | -57.4 | NC_004913.1 | + | 8807 | 0.66 | 0.55721 |
|
Target: 5'- gGGCCUGCUggUCCGC-GUGGUgagAAGgGCg -3' miRNA: 3'- aUUGGACGA--GGGUGuCGCCG---UUCgCG- -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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