miRNA: 3'- -GGCCGUAGCUCua-GUagGCGGAcGGC- -5'
miRNA: 3'- gGCCG-----UAGCUcuaGUAGGCGGaCGGC- -5'
miRNA: 3'- gGCCGu---AGCU-CUAGuaGGCGGaCGGC- -5'
miRNA: 3'- -GGCCG------------UAGC-UCUAgUAGGCGGaCGGc -5'
miRNA: 3'- gGCC-GUAGCUCUAG--UAGGCgGa--CG-GC- -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 | |||||||
| 22735 | 3' | -57 | NC_005091.1 | + | 14597 | 0.66 | 0.659126 |
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Target: 5'- cCCGGCAUCGAGcggCA--CGCUUaCCGg -3' miRNA: 3'- -GGCCGUAGCUCua-GUagGCGGAcGGC- -5' |
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| 22735 | 3' | -57 | NC_005091.1 | + | 9348 | 0.66 | 0.669822 |
|
Target: 5'- gCGGCgagcaGUCGAc--CAUUCGCCgGCCGg -3' miRNA: 3'- gGCCG-----UAGCUcuaGUAGGCGGaCGGC- -5' |
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| 22735 | 3' | -57 | NC_005091.1 | + | 25720 | 0.66 | 0.680484 |
|
Target: 5'- gCGGCcagcUCGGcGAUCggCUGCCcGCCGc -3' miRNA: 3'- gGCCGu---AGCU-CUAGuaGGCGGaCGGC- -5' |
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| 22735 | 3' | -57 | NC_005091.1 | + | 27994 | 0.66 | 0.680484 |
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Target: 5'- gCCGGCcgacacgaccugAUCGuAGGU-AUCCGCC-GCCa -3' miRNA: 3'- -GGCCG------------UAGC-UCUAgUAGGCGGaCGGc -5' |
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| 22735 | 3' | -57 | NC_005091.1 | + | 48609 | 0.66 | 0.680484 |
|
Target: 5'- gCGGcCGUCGGGGUCccAUCCGgCgagGCgCGa -3' miRNA: 3'- gGCC-GUAGCUCUAG--UAGGCgGa--CG-GC- -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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