miRNA: 3'- -GCCGGCGcUAC---UUGUa--CGUCCa--CUGC- -5'
miRNA: 3'- -GCCGGCGCuaCU-----UGUACGUccACUGc -5'
miRNA: 3'- -GCCG---------GCGCUACUUGUACgucCACUGc -5'
miRNA: 3'- -GCCGGCGCuac--UUGUACGUCca-CUGc -5'
miRNA: 3'- -GCCGGCGCU----ACUUGUacgUCCA--CUGc -5'
Results 1 - 5 of 5 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 | |||||||
| 12200 | 5' | -55 | NC_003309.1 | + | 31216 | 0.66 | 0.731731 |
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Target: 5'- cCGGCCGC-AUGcuuGACGgccGCAGGcacGACGa -3' miRNA: 3'- -GCCGGCGcUAC---UUGUa--CGUCCa--CUGC- -5' |
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| 12200 | 5' | -55 | NC_003309.1 | + | 39794 | 0.66 | 0.710386 |
|
Target: 5'- uCGGCCGCGgcGAgcaccACAUGCAc-UGACc -3' miRNA: 3'- -GCCGGCGCuaCU-----UGUACGUccACUGc -5' |
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| 12200 | 5' | -55 | NC_003309.1 | + | 31749 | 0.66 | 0.699593 |
|
Target: 5'- uCGGCagcaucaugCGCGAUGAGCGUGa--GUGGCc -3' miRNA: 3'- -GCCG---------GCGCUACUUGUACgucCACUGc -5' |
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| 12200 | 5' | -55 | NC_003309.1 | + | 36069 | 0.68 | 0.633836 |
|
Target: 5'- aCGGCCGCGuauacAGCGUGCAGaucGACc -3' miRNA: 3'- -GCCGGCGCuac--UUGUACGUCca-CUGc -5' |
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| 12200 | 5' | -55 | NC_003309.1 | + | 35910 | 0.68 | 0.62281 |
|
Target: 5'- cCGGCCGCGAcuauUGAACGg--AGGUacGACa -3' miRNA: 3'- -GCCGGCGCU----ACUUGUacgUCCA--CUGc -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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