miRNA: 3'- uCGAGcg-----UAGCCuGCUUAAGCuGGCU- -5'
miRNA: 3'- -UCGa---GCGUAGCCUGCUUAagCUGGCU- -5'
miRNA: 3'- -UCGAGCGUaGCCUGCuuaaGCUGGcu -5'
miRNA: 3'- -UCGAGCGU--------AGCCUGcUUA--AGCUGGcu -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 | |||||||
| 18453 | 5' | -52.7 | NC_004681.1 | + | 39694 | 0.7 | 0.726593 |
|
Target: 5'- cGCUCaaauucaGUCGGuCGAAUUCGuCCGAu -3' miRNA: 3'- uCGAGcg-----UAGCCuGCUUAAGCuGGCU- -5' |
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| 18453 | 5' | -52.7 | NC_004681.1 | + | 74198 | 0.71 | 0.651602 |
|
Target: 5'- cAGCcucaUGCGUCGGGCGGAUg-GACUGAu -3' miRNA: 3'- -UCGa---GCGUAGCCUGCUUAagCUGGCU- -5' |
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| 18453 | 5' | -52.7 | NC_004681.1 | + | 3501 | 0.73 | 0.58648 |
|
Target: 5'- uGGCUCGCG-CGGGCGccg-CGGCCa- -3' miRNA: 3'- -UCGAGCGUaGCCUGCuuaaGCUGGcu -5' |
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| 18453 | 5' | -52.7 | NC_004681.1 | + | 39172 | 0.66 | 0.928363 |
|
Target: 5'- gGGCUUGCAcggcgcggUCGGACaGGUgcUUGACCa- -3' miRNA: 3'- -UCGAGCGU--------AGCCUGcUUA--AGCUGGcu -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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