miRNA: 3'- -GAGCCUGaAGGAGUaaaaacaGCUCC- -5'
miRNA: 3'- -GAGC-CUGaAGGAGUAaaaaCAGCUCc -5'
miRNA: 3'- -GAGCCUGaaGGAGUaaaaaCaGCUCC- -5'
miRNA: 3'- gaGCCUGaAGGAGUAAaaa---CAGCUCc -5'
miRNA: 3'- gaGCCUGa-AGGAGuaaaa--ACAGCUCC- -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 | |||||||
| 11145 | 5' | -46.7 | NC_002794.1 | + | 103347 | 0.66 | 0.999992 |
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Target: 5'- cCUCGGGC-UCCUCGaaga---CGAGGu -3' miRNA: 3'- -GAGCCUGaAGGAGUaaaaacaGCUCC- -5' |
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| 11145 | 5' | -46.7 | NC_002794.1 | + | 41415 | 0.66 | 0.999992 |
|
Target: 5'- uCUCGcGAC-UCCUCGUc---GUCGGGa -3' miRNA: 3'- -GAGC-CUGaAGGAGUAaaaaCAGCUCc -5' |
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| 11145 | 5' | -46.7 | NC_002794.1 | + | 88734 | 0.68 | 0.999808 |
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Target: 5'- cCUCGGAUgaCCUCGgggucGcCGAGGa -3' miRNA: 3'- -GAGCCUGaaGGAGUaaaaaCaGCUCC- -5' |
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| 11145 | 5' | -46.7 | NC_002794.1 | + | 119363 | 0.72 | 0.995448 |
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Target: 5'- -gCGGACcUCCUCGUUcgcgugGUCGAGc -3' miRNA: 3'- gaGCCUGaAGGAGUAAaaa---CAGCUCc -5' |
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| 11145 | 5' | -46.7 | NC_002794.1 | + | 145101 | 0.74 | 0.977929 |
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Target: 5'- -cCGGACggUCCUCuacgcggUGUCGGGGc -3' miRNA: 3'- gaGCCUGa-AGGAGuaaaa--ACAGCUCC- -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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