miRNA: 3'- caGCGCGUA--------GUCCGUU-----UCGGCUaa-CG- -5'
miRNA: 3'- caGCgCGUAGUCCGU-UUCGGCUaaCG- -5'
miRNA: 3'- caGCGCG--UAGUC-CGuuu----CGGCUA-ACG- -5'
miRNA: 3'- caGCgCGUAGUCCGUuuCGG-CUAaCG- -5'
miRNA: 3'- -CAgCGCG-UAGUcCGUUUCGGCua-ACG- -5'
Results 61 - 65 of 65 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
|
R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 28014 | 5' | -52.5 | NC_005887.1 | + | 2687 | 0.66 | 0.777919 |
|
Target: 5'- -gUGCGCGUgaagcguaCGGGCGGcaagcGGCCGAgccGCg -3' miRNA: 3'- caGCGCGUA--------GUCCGUU-----UCGGCUaa-CG- -5' |
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| 28014 | 5' | -52.5 | NC_005887.1 | + | 2306 | 0.67 | 0.70119 |
|
Target: 5'- -aCG-GUAUCGGGCGuAGGCCGGccGCc -3' miRNA: 3'- caGCgCGUAGUCCGU-UUCGGCUaaCG- -5' |
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| 28014 | 5' | -52.5 | NC_005887.1 | + | 1715 | 0.66 | 0.767351 |
|
Target: 5'- -gCGCGCucGUCAGuGCcugucuuGCCGAUgUGCg -3' miRNA: 3'- caGCGCG--UAGUC-CGuuu----CGGCUA-ACG- -5' |
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| 28014 | 5' | -52.5 | NC_005887.1 | + | 504 | 0.7 | 0.51862 |
|
Target: 5'- -aCGaGCAUCAGGCGccGCCaGAUcGCg -3' miRNA: 3'- caGCgCGUAGUCCGUuuCGG-CUAaCG- -5' |
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| 28014 | 5' | -52.5 | NC_005887.1 | + | 296 | 0.69 | 0.609274 |
|
Target: 5'- cGUgGCGUgAUCA-GCGAGGCCGcggUGCg -3' miRNA: 3'- -CAgCGCG-UAGUcCGUUUCGGCua-ACG- -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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