miRNA: 3'- -UCCGuaaACUUCU--UC--ACCUCgGGGCC- -5'
miRNA: 3'- -UCCGUa--AACuu-CUUCACCUCGGGGcc -5'
miRNA: 3'- uCCGUaaACUUCU----------UCACCUCGG----GGCC- -5'
miRNA: 3'- -UCCGUAAACUUCUUCACCUCGGGGCC- -5'
Results 1 - 4 of 4 are showing below:
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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 | |||||||
| 30415 | 3' | -52.9 | NC_006548.1 | + | 21920 | 0.66 | 0.743664 |
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Target: 5'- gGGGC---UGAAGAccAGcuUGGAGgUCCGGg -3' miRNA: 3'- -UCCGuaaACUUCU--UC--ACCUCgGGGCC- -5' |
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| 30415 | 3' | -52.9 | NC_006548.1 | + | 38117 | 0.68 | 0.61898 |
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Target: 5'- cGGGCGgagUUGcuuGAGGUGGGGUUCCu- -3' miRNA: 3'- -UCCGUa--AACuu-CUUCACCUCGGGGcc -5' |
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| 30415 | 3' | -52.9 | NC_006548.1 | + | 28657 | 0.69 | 0.573184 |
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Target: 5'- uGGCG--UGAAGGgugucuugguGGUGGGGCCuguaCCGGu -3' miRNA: 3'- uCCGUaaACUUCU----------UCACCUCGG----GGCC- -5' |
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| 30415 | 3' | -52.9 | NC_006548.1 | + | 5392 | 1.1 | 0.0009 |
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Target: 5'- cAGGCAUUUGAAGAAGUGGAGCCCCGGc -3' miRNA: 3'- -UCCGUAAACUUCUUCACCUCGGGGCC- -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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