miRNA: 3'- -GCACGU-CUCGAC-C---------UUUGUCGCgCUGc -5'
miRNA: 3'- -GCACGu--CUC-GACCUUUG-UCG-CGCUGc -5'
miRNA: 3'- gcACGUC--UCGACcUUUGUCGCGCUGc -5'
miRNA: 3'- -GCA-CGUCUCGACCu----UUG-UCGCGCuGC- -5'
miRNA: 3'- -GCACGUCUCGACCUUUGUCGCGCUGC- -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 | |||||||
| 1258 | 3' | -54.7 | NC_001317.1 | + | 9802 | 0.66 | 0.573976 |
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Target: 5'- cCGUGCAgGGGCUGuGccgcguacaAAGCGGCGgGAUc -3' miRNA: 3'- -GCACGU-CUCGAC-C---------UUUGUCGCgCUGc -5' |
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| 1258 | 3' | -54.7 | NC_001317.1 | + | 3833 | 0.66 | 0.56259 |
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Target: 5'- gCGUGUccuGAGuCUGGAAACuGGCgGUGACc -3' miRNA: 3'- -GCACGu--CUC-GACCUUUG-UCG-CGCUGc -5' |
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| 1258 | 3' | -54.7 | NC_001317.1 | + | 17598 | 0.7 | 0.339277 |
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Target: 5'- -cUGCAGgcGGCUGaGAAUGGCGCGGCu -3' miRNA: 3'- gcACGUC--UCGACcUUUGUCGCGCUGc -5' |
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| 1258 | 3' | -54.7 | NC_001317.1 | + | 2743 | 0.73 | 0.209821 |
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Target: 5'- uCGUcGCAGAGCUGGccaccGGCgAGCGCG-CGg -3' miRNA: 3'- -GCA-CGUCUCGACCu----UUG-UCGCGCuGC- -5' |
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| 1258 | 3' | -54.7 | NC_001317.1 | + | 3639 | 1.1 | 0.000428 |
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Target: 5'- cCGUGCAGAGCUGGAAACAGCGCGACGg -3' miRNA: 3'- -GCACGUCUCGACCUUUGUCGCGCUGC- -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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