miRNA: 3'- -CAGCG-GUGGCGGCGGCugGGCC-GUGa -5'
miRNA: 3'- caGCGGUGGCG--------------GCGGCUgGGCCGUga -5'
miRNA: 3'- cAGCGGUGGCGG-------CGG--CUGGG------CCGugA- -5'
miRNA: 3'- caGCGGUGGCGGCGGcuGGG-CCGUGa -5'
Results 21 - 24 of 24 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 | |||||||
| 256 | 5' | -64.7 | AC_000008.1 | + | 19382 | 0.67 | 0.168957 |
|
Target: 5'- cGUUGCgCGCCGCCGCCG--CUGGaUACa -3' miRNA: 3'- -CAGCG-GUGGCGGCGGCugGGCC-GUGa -5' |
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| 256 | 5' | -64.7 | AC_000008.1 | + | 19676 | 0.67 | 0.172105 |
|
Target: 5'- -cCGCCGCCGCgcguugggcggcagUGCCGGgUCGGCGg- -3' miRNA: 3'- caGCGGUGGCG--------------GCGGCUgGGCCGUga -5' |
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| 256 | 5' | -64.7 | AC_000008.1 | + | 23802 | 0.66 | 0.213034 |
|
Target: 5'- aUCGCCGCUGCCcgugccaGCCagGGCCCuuugcaGGCugUg -3' miRNA: 3'- cAGCGGUGGCGG-------CGG--CUGGG------CCGugA- -5' |
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| 256 | 5' | -64.7 | AC_000008.1 | + | 11994 | 0.76 | 0.034818 |
|
Target: 5'- -cCGUCGCCGCCGCCucCCCgGGCGCc -3' miRNA: 3'- caGCGGUGGCGGCGGcuGGG-CCGUGa -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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