miRNA: 3'- uAGUAgcUUGCAuag------CCGGGCUGCGC- -5'
miRNA: 3'- uAGUa-----GCUUGCaUAGCCGGGCuGCGC- -5'
miRNA: 3'- -UAGUAGCUUGCauaGCCGGGcUGCGc -5'
miRNA: 3'- -UAguAGC-UUGC-AUAGCCGG-GCUGC-GC- -5'
miRNA: 3'- uaguaGCUUGCaua-----GCCGGGCUGCGc -5'
Results 21 - 25 of 25 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 | |||||||
| 26995 | 3' | -54.4 | NC_005809.1 | + | 7153 | 0.68 | 0.597057 |
|
Target: 5'- cUCAU--GACGUugaagcccaGGCCCGACGCGc -3' miRNA: 3'- uAGUAgcUUGCAuag------CCGGGCUGCGC- -5' |
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| 26995 | 3' | -54.4 | NC_005809.1 | + | 6995 | 0.68 | 0.597057 |
|
Target: 5'- uUCAcacgcgCGAGCGgGUCGGCUCG-CGUGa -3' miRNA: 3'- uAGUa-----GCUUGCaUAGCCGGGCuGCGC- -5' |
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| 26995 | 3' | -54.4 | NC_005809.1 | + | 6089 | 0.72 | 0.354134 |
|
Target: 5'- aGUCGUCGAGCG---CGGCCUuGCGCa -3' miRNA: 3'- -UAGUAGCUUGCauaGCCGGGcUGCGc -5' |
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| 26995 | 3' | -54.4 | NC_005809.1 | + | 5281 | 0.67 | 0.641884 |
|
Target: 5'- gAUguUCGcGGCGuUGUCGGCCaCGGCGuCGa -3' miRNA: 3'- -UAguAGC-UUGC-AUAGCCGG-GCUGC-GC- -5' |
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| 26995 | 3' | -54.4 | NC_005809.1 | + | 2728 | 0.69 | 0.541775 |
|
Target: 5'- ----cCGGACGcuugagcgCGGCCCGGCGCu -3' miRNA: 3'- uaguaGCUUGCaua-----GCCGGGCUGCGc -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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