miRNA: 3'- -GUCuCUAGAGCgCC-GGCUgAGCUCGC- -5'
miRNA: 3'- gUCUCUAGa-GCGCCGG---CUGa---GC-UCGC- -5'
miRNA: 3'- -GUCUCUag-----------AGCgCCGGCUGAGCUCGC- -5'
miRNA: 3'- -GUCUCUaGAG-CGCCGGcu------GAGCUCGc -5'
Results 41 - 44 of 44 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 | |||||||
| 15683 | 5' | -57.6 | NC_004065.1 | + | 50529 | 0.72 | 0.616776 |
|
Target: 5'- aCGGcGGUCUCGgGGcCCGAaUCGGGCGu -3' miRNA: 3'- -GUCuCUAGAGCgCC-GGCUgAGCUCGC- -5' |
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| 15683 | 5' | -57.6 | NC_004065.1 | + | 124742 | 0.71 | 0.713957 |
|
Target: 5'- uGGAGAUCcgCGCGGCCcugGACccggCGcAGCGg -3' miRNA: 3'- gUCUCUAGa-GCGCCGG---CUGa---GC-UCGC- -5' |
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| 15683 | 5' | -57.6 | NC_004065.1 | + | 76687 | 0.69 | 0.824657 |
|
Target: 5'- gCAGGGAaacgaccgacugaUCG-GGUCGGCUCGGGCGg -3' miRNA: 3'- -GUCUCUag-----------AGCgCCGGCUGAGCUCGC- -5' |
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| 15683 | 5' | -57.6 | NC_004065.1 | + | 53725 | 0.66 | 0.933344 |
|
Target: 5'- cCGGAGAgCUCgGCGGUCuugaaccuCUCGGGCa -3' miRNA: 3'- -GUCUCUaGAG-CGCCGGcu------GAGCUCGc -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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