miRNA: 3'- -GUCCaGUCaGGCCC-GCCCGUCCGCga -5'
miRNA: 3'- guCCAgUC-AGGCCCGCCCGUCCGC-Ga -5'
miRNA: 3'- gUCCAGUCa-GGc--CCGCCCGuCCGCGa -5'
miRNA: 3'- -GUCCa--GUCAGGCCCGC--------------CCGUCCGCGa -5'
miRNA: 3'- -GUCCAGUCAGGCCCGCCCGUCCGCGA- -5'
Results 41 - 45 of 45 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 | |||||||
| 5540 | 3' | -64.1 | NC_001806.1 | + | 34421 | 0.72 | 0.241948 |
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Target: 5'- cCGGGcCGGgCCGGGcCGGGUGGGCGg- -3' miRNA: 3'- -GUCCaGUCaGGCCC-GCCCGUCCGCga -5' |
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| 5540 | 3' | -64.1 | NC_001806.1 | + | 148395 | 0.74 | 0.178159 |
|
Target: 5'- -uGGUgGGcUCCGGGUGGGUGGGCGaCa -3' miRNA: 3'- guCCAgUC-AGGCCCGCCCGUCCGC-Ga -5' |
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| 5540 | 3' | -64.1 | NC_001806.1 | + | 2726 | 0.75 | 0.157883 |
|
Target: 5'- gGGGUCGGggCCcucGGCGGGCcGGCGCg -3' miRNA: 3'- gUCCAGUCa-GGc--CCGCCCGuCCGCGa -5' |
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| 5540 | 3' | -64.1 | NC_001806.1 | + | 25906 | 0.77 | 0.113745 |
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Target: 5'- gCGGGcggCGGUCCGGGCGgcgugcgcgcgcgcGGCGGGCGUg -3' miRNA: 3'- -GUCCa--GUCAGGCCCGC--------------CCGUCCGCGa -5' |
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| 5540 | 3' | -64.1 | NC_001806.1 | + | 146079 | 1.06 | 0.000853 |
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Target: 5'- cCAGGUCAGUCCGGGCGGGCAGGCGCUc -3' miRNA: 3'- -GUCCAGUCAGGCCCGCCCGUCCGCGA- -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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