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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 | |||||||
| 30939 | 3' | -54.3 | NC_006552.1 | + | 57944 | 0.66 | 0.782196 |
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Target: 5'- -cUGGCGCC-GGUUcGUucaccuGCUGGAGggGa -3' miRNA: 3'- cuACCGCGGuUCGA-CG------CGACUUCuuC- -5' |
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| 30939 | 3' | -54.3 | NC_006552.1 | + | 62458 | 0.67 | 0.70841 |
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Target: 5'- --cGGCGCC--GCUGCGCcucaccgagUGGaaAGAAGg -3' miRNA: 3'- cuaCCGCGGuuCGACGCG---------ACU--UCUUC- -5' |
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| 30939 | 3' | -54.3 | NC_006552.1 | + | 11946 | 0.68 | 0.668735 |
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Target: 5'- --aGGCucGCUAGGUcggagcgcauggcggUGUGCUGggGAAGg -3' miRNA: 3'- cuaCCG--CGGUUCG---------------ACGCGACuuCUUC- -5' |
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| 30939 | 3' | -54.3 | NC_006552.1 | + | 21218 | 0.68 | 0.630831 |
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Target: 5'- cGAUGGcCGCCAgAGCUuCGCUGAGu--- -3' miRNA: 3'- -CUACC-GCGGU-UCGAcGCGACUUcuuc -5' |
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| 30939 | 3' | -54.3 | NC_006552.1 | + | 18331 | 0.69 | 0.564206 |
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Target: 5'- -uUGGCGCCGcugcacccugGGCUGCuuGCUGAccacGAAGc -3' miRNA: 3'- cuACCGCGGU----------UCGACG--CGACUu---CUUC- -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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