miRNA: 3'- -GGUcCGA-------CCGCUUGGg------CGCUAC-CUCG- -5'
miRNA: 3'- -GGUCCGaCCGcUUGGGCG--CUAcCUCG- -5'
miRNA: 3'- gguCCG--ACCGCUUGGGcGCUa-CC-UCG- -5'
miRNA: 3'- ggUCCGACCgCUUG--GgCGCUaCCuCG- -5'
miRNA: 3'- -GGUC-CG--ACCGCu-UGGgCGCUACc-UCG- -5'
Results 21 - 25 of 25 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 | |||||||
| 12495 | 3' | -58.4 | NC_003324.1 | + | 50933 | 0.68 | 0.463354 |
|
Target: 5'- gCCAuGCUgucgcugGGCGAACCgccugcaGCGAUGuGGGCg -3' miRNA: 3'- -GGUcCGA-------CCGCUUGGg------CGCUAC-CUCG- -5' |
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| 12495 | 3' | -58.4 | NC_003324.1 | + | 2863 | 0.67 | 0.514101 |
|
Target: 5'- aCCAGGC-GGUaGACCUGCcaGAUcGGGCg -3' miRNA: 3'- -GGUCCGaCCGcUUGGGCG--CUAcCUCG- -5' |
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| 12495 | 3' | -58.4 | NC_003324.1 | + | 20404 | 0.66 | 0.544992 |
|
Target: 5'- --cGGCgaUGGCGAACCC-CGAccGGaAGCu -3' miRNA: 3'- gguCCG--ACCGCUUGGGcGCUa-CC-UCG- -5' |
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| 12495 | 3' | -58.4 | NC_003324.1 | + | 57040 | 0.66 | 0.576458 |
|
Target: 5'- -uGGGCUGGgGAGCggCgGCGAgGGcGCg -3' miRNA: 3'- ggUCCGACCgCUUG--GgCGCUaCCuCG- -5' |
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| 12495 | 3' | -58.4 | NC_003324.1 | + | 9728 | 0.66 | 0.587043 |
|
Target: 5'- cCCAGcGCguUGGCGuuGCCgGCGGUGuuGGCc -3' miRNA: 3'- -GGUC-CG--ACCGCu-UGGgCGCUACc-UCG- -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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