miRNA: 3'- gCUACUcaaGCGaCUCGUCCAGCuau -5'
miRNA: 3'- -GCUACUCaa-GCGACUCGuCCAGcuau -5'
miRNA: 3'- -GCUACUCA---AGCGACU--CGUc-------CAGCUAU- -5'
miRNA: 3'- -GCUacUCAaGCGACUCGUCCAGCUau -5'
miRNA: 3'- -GCUACUCAAGCGACUCGUCCAGCUAU- -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 | |||||||
| 23270 | 5' | -52 | NC_005259.1 | + | 16706 | 0.66 | 0.891595 |
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Target: 5'- aGGUGAc--CGCcGAGCAGGUCGc-- -3' miRNA: 3'- gCUACUcaaGCGaCUCGUCCAGCuau -5' |
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| 23270 | 5' | -52 | NC_005259.1 | + | 54589 | 0.68 | 0.824948 |
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Target: 5'- gCGGUGGGcaaUGCUGAGCuGGUCa--- -3' miRNA: 3'- -GCUACUCaa-GCGACUCGuCCAGcuau -5' |
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| 23270 | 5' | -52 | NC_005259.1 | + | 43153 | 0.68 | 0.815581 |
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Target: 5'- uCGAUGAGUgucUCGCUGAucGCAagcgcgaaGUCGGUAc -3' miRNA: 3'- -GCUACUCA---AGCGACU--CGUc-------CAGCUAU- -5' |
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| 23270 | 5' | -52 | NC_005259.1 | + | 39085 | 0.69 | 0.745082 |
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Target: 5'- uCGAacAGUcCGUUGAGCGGGUUGAg- -3' miRNA: 3'- -GCUacUCAaGCGACUCGUCCAGCUau -5' |
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| 23270 | 5' | -52 | NC_005259.1 | + | 29564 | 1.08 | 0.00324 |
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Target: 5'- gCGAUGAGUUCGCUGAGCAGGUCGAUAa -3' miRNA: 3'- -GCUACUCAAGCGACUCGUCCAGCUAU- -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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