miRNA: 3'- -UUGCGCUUUgcaAAACGUUUUGa--------GCC- -5'
miRNA: 3'- uuGCGC-UUUGCAaaaCGUuuUGAGCC- -5'
miRNA: 3'- uUGCGcUUUGCAAAACGUUUUGa-GCC- -5'
miRNA: 3'- uuGCGCUUUG-CAAAaCGUUUUGAGCC- -5'
miRNA: 3'- -UUGCGCUUUGCAAAACGUUUUGAGCC- -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
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| Predicted miRNA align pattern | |||||||
| 22488 | 5' | -44.1 | NC_005068.1 | + | 43693 | 0.66 | 0.999991 |
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Target: 5'- aGAUGCGAAAgagUUUGCAAAACaauuaauagCGGa -3' miRNA: 3'- -UUGCGCUUUgcaAAACGUUUUGa--------GCC- -5' |
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| 22488 | 5' | -44.1 | NC_005068.1 | + | 17107 | 0.68 | 0.999883 |
|
Target: 5'- -uUGCGaAAGCGUg--GCAc-GCUCGGg -3' miRNA: 3'- uuGCGC-UUUGCAaaaCGUuuUGAGCC- -5' |
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| 22488 | 5' | -44.1 | NC_005068.1 | + | 72074 | 0.68 | 0.999883 |
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Target: 5'- cAUGC-AAAUGUUUUGCGGAACagUGGa -3' miRNA: 3'- uUGCGcUUUGCAAAACGUUUUGa-GCC- -5' |
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| 22488 | 5' | -44.1 | NC_005068.1 | + | 10269 | 0.81 | 0.768047 |
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Target: 5'- -uCGUGAAACaGUUUcGCAAAACUCGGu -3' miRNA: 3'- uuGCGCUUUG-CAAAaCGUUUUGAGCC- -5' |
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| 22488 | 5' | -44.1 | NC_005068.1 | + | 10230 | 1.1 | 0.02927 |
|
Target: 5'- gAACGCGAAACGUUUUGCAAAACUCGGu -3' miRNA: 3'- -UUGCGCUUUGCAAAACGUUUUGAGCC- -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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