miRNA: 3'- aaaACGACGUGGCuaGCUCG--CGCCcu -5'
miRNA: 3'- aaaACGA-CGUGGcUAGCUCG--------C-GCCCU- -5'
miRNA: 3'- aaaaCGACGUGGCUAgcuCGC-GCCCU- -5'
miRNA: 3'- aaaaCGACGugGCuaGCUCGCGC-C-CU- -5'
miRNA: 3'- -AAAACGACGUGGCUAGCUCGCGCCCU- -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 | |||||||
| 24837 | 5' | -56.2 | NC_005284.1 | + | 36695 | 0.67 | 0.541774 |
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Target: 5'- --cUGCUGCGCCG--CGAGCucGCGGc- -3' miRNA: 3'- aaaACGACGUGGCuaGCUCG--CGCCcu -5' |
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| 24837 | 5' | -56.2 | NC_005284.1 | + | 5956 | 0.67 | 0.552598 |
|
Target: 5'- --gUGCUcGCACCaGUCGAGCcacgcgucGaCGGGAa -3' miRNA: 3'- aaaACGA-CGUGGcUAGCUCG--------C-GCCCU- -5' |
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| 24837 | 5' | -56.2 | NC_005284.1 | + | 39523 | 0.66 | 0.618602 |
|
Target: 5'- ---gGCUGUGCCGAU---GCGcCGGGAu -3' miRNA: 3'- aaaaCGACGUGGCUAgcuCGC-GCCCU- -5' |
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| 24837 | 5' | -56.2 | NC_005284.1 | + | 44874 | 0.66 | 0.640798 |
|
Target: 5'- ---cGCUGCugCG--CGAGCGCGaGcGAc -3' miRNA: 3'- aaaaCGACGugGCuaGCUCGCGC-C-CU- -5' |
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| 24837 | 5' | -56.2 | NC_005284.1 | + | 39884 | 1.06 | 0.001053 |
|
Target: 5'- uUUUUGCUGCACCGAUCGAGCGCGGGAu -3' miRNA: 3'- -AAAACGACGUGGCUAGCUCGCGCCCU- -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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