miRNA: 3'- -CUGcAGCUaaa-----GGAGGCGGuCgCCGA- -5'
miRNA: 3'- cuGCaGCUaAAGGAGGCGGUCGcCGA- -5'
miRNA: 3'- cUGCAGcuaaAGGAGGCGGuc--------GCCGA- -5'
miRNA: 3'- cuGCAGCUAaAGGAGG--------CGGuCGCCGa -5'
miRNA: 3'- -CUGCagCUA--AAG-GAGGCGG---------UCGCCGa -5'
Results 41 - 45 of 45 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 | |||||||
| 24739 | 5' | -56.8 | NC_005264.1 | + | 13256 | 0.66 | 0.868042 |
|
Target: 5'- cGGCaUCGAgcagccccCCUCCGCCcGgGGCUg -3' miRNA: 3'- -CUGcAGCUaaa-----GGAGGCGGuCgCCGA- -5' |
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| 24739 | 5' | -56.8 | NC_005264.1 | + | 12130 | 0.68 | 0.784987 |
|
Target: 5'- -cUGaCGA-UUCCUCCGCCGGC-GCUg -3' miRNA: 3'- cuGCaGCUaAAGGAGGCGGUCGcCGA- -5' |
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| 24739 | 5' | -56.8 | NC_005264.1 | + | 7339 | 0.67 | 0.860566 |
|
Target: 5'- cGCGUCuucgUCCUCCGCCucgucagacuCGGCUa -3' miRNA: 3'- cUGCAGcuaaAGGAGGCGGuc--------GCCGA- -5' |
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| 24739 | 5' | -56.8 | NC_005264.1 | + | 6986 | 0.7 | 0.708494 |
|
Target: 5'- -gUGUCGGUcUCCUCCucggcgugGCCcGCGGCg -3' miRNA: 3'- cuGCAGCUAaAGGAGG--------CGGuCGCCGa -5' |
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| 24739 | 5' | -56.8 | NC_005264.1 | + | 3348 | 0.66 | 0.868042 |
|
Target: 5'- uGGCGagGGUcuUUCgCUCCGCUccgucugggGGCGGCg -3' miRNA: 3'- -CUGCagCUA--AAG-GAGGCGG---------UCGCCGa -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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