miRNA: 3'- -UCGCGgACgUUCG----------ACGAGCGGGGCUA- -5'
miRNA: 3'- ucgCGGaCGUUCga-------CGAGCGGGGCUa -5'
miRNA: 3'- -UCGcGGACGUUCGACGAGcg-GGGCUA- -5'
miRNA: 3'- -UC-GCGG-------------ACGUucGACGAGCGGGGCUa -5'
miRNA: 3'- -UCGCGGACGUUCGACGAGCGGGGCUA- -5'
Results 1 - 5 of 5 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 | |||||||
| 32246 | 5' | -61.7 | NC_007022.1 | + | 121458 | 0.66 | 0.63401 |
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Target: 5'- uAGCGCgUG-AAGCaauauaaacuUGUUCGCCUCGAUc -3' miRNA: 3'- -UCGCGgACgUUCG----------ACGAGCGGGGCUA- -5' |
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| 32246 | 5' | -61.7 | NC_007022.1 | + | 150603 | 0.66 | 0.604051 |
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Target: 5'- --gGCCgGCAGGaccuuucagGUUCGCCCCGAa -3' miRNA: 3'- ucgCGGaCGUUCga-------CGAGCGGGGCUa -5' |
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| 32246 | 5' | -61.7 | NC_007022.1 | + | 131490 | 0.66 | 0.604051 |
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Target: 5'- cAGCaCUUGCGAGCUGCUUugaCUCGAUg -3' miRNA: 3'- -UCGcGGACGUUCGACGAGcg-GGGCUA- -5' |
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| 32246 | 5' | -61.7 | NC_007022.1 | + | 54383 | 0.67 | 0.553623 |
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Target: 5'- cAGuCGCCcgaugccaguauaUGCAc-CUGCUCGUCCCGAa -3' miRNA: 3'- -UC-GCGG-------------ACGUucGACGAGCGGGGCUa -5' |
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| 32246 | 5' | -61.7 | NC_007022.1 | + | 26435 | 1.05 | 0.00152 |
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Target: 5'- gAGCGCCUGCAAGCUGCUCGCCCCGAUu -3' miRNA: 3'- -UCGCGGACGUUCGACGAGCGGGGCUA- -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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