miRNA: 3'- -GGCCUGUCGUC-----CGCGCag----UGCauCUC- -5'
miRNA: 3'- gGCCUGUCGuC-CGCGCAGUGca-------UCUC- -5'
miRNA: 3'- -GGC-CUGuCG-------UCCGCGCAGUGCa-UCUC- -5'
miRNA: 3'- -GGCCUGUCGUCCGCGCAGUGCAUCUC- -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 | |||||||
| 1604 | 3' | -56.7 | NC_001347.2 | + | 37998 | 0.67 | 0.930082 |
|
Target: 5'- cUCGGGCAGCAGccgccGCGCGgccucgGCGgcGGGc -3' miRNA: 3'- -GGCCUGUCGUC-----CGCGCag----UGCauCUC- -5' |
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| 1604 | 3' | -56.7 | NC_001347.2 | + | 190739 | 0.68 | 0.889976 |
|
Target: 5'- gCGGACAGUuGaGCGCGUCGCcgcuaaaaaAGAGu -3' miRNA: 3'- gGCCUGUCGuC-CGCGCAGUGca-------UCUC- -5' |
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| 1604 | 3' | -56.7 | NC_001347.2 | + | 92260 | 0.68 | 0.901909 |
|
Target: 5'- gCCGuGGCcGCcgccaugAGGCGCGUCAUGgaAGGGa -3' miRNA: 3'- -GGC-CUGuCG-------UCCGCGCAGUGCa-UCUC- -5' |
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| 1604 | 3' | -56.7 | NC_001347.2 | + | 158038 | 1.09 | 0.004159 |
|
Target: 5'- gCCGGACAGCAGGCGCGUCACGUAGAGc -3' miRNA: 3'- -GGCCUGUCGUCCGCGCAGUGCAUCUC- -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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