miRNA: 3'- -CGUUCGGUGACgUgGACguCuuUaga -5'
miRNA: 3'- -CGUUCG-GUGA-CGUGGaCGUCUu---UAGa -5'
miRNA: 3'- -CGUUCGGUGACG----UGGac-GUCUUUaga -5'
miRNA: 3'- -CGUu--CGG--UGACGUGGACGU------------CUUUAGa -5'
miRNA: 3'- -CGUUCGGUGACGUGGACGUCUUUAGA- -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 | |||||||
| 6224 | 5' | -51.2 | NC_001844.1 | + | 79950 | 0.66 | 0.978089 |
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Target: 5'- cGCGGGUCGCUGgGgCUGguGggGg-- -3' miRNA: 3'- -CGUUCGGUGACgUgGACguCuuUaga -5' |
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| 6224 | 5' | -51.2 | NC_001844.1 | + | 78919 | 0.68 | 0.959415 |
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Target: 5'- cGCGGGCgCGCUgGCAUCaGCAGAugccAUCg -3' miRNA: 3'- -CGUUCG-GUGA-CGUGGaCGUCUu---UAGa -5' |
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| 6224 | 5' | -51.2 | NC_001844.1 | + | 116332 | 0.68 | 0.951289 |
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Target: 5'- cGCGAGCCGCUGCucacACCaucCGGAGAc-- -3' miRNA: 3'- -CGUUCGGUGACG----UGGac-GUCUUUaga -5' |
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| 6224 | 5' | -51.2 | NC_001844.1 | + | 102431 | 0.71 | 0.873067 |
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Target: 5'- gGUAuuuGCCcaGCUGCGCCUGCAcgugguuuccccGAAAUCc -3' miRNA: 3'- -CGUu--CGG--UGACGUGGACGU------------CUUUAGa -5' |
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| 6224 | 5' | -51.2 | NC_001844.1 | + | 109861 | 1.1 | 0.005511 |
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Target: 5'- aGCAAGCCACUGCACCUGCAGAAAUCUc -3' miRNA: 3'- -CGUUCGGUGACGUGGACGUCUUUAGA- -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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