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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
|
Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 28736 | 5' | -44.2 | NC_006146.1 | + | 163075 | 0.98 | 0.148006 |
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Target: 5'- gUGGGUAGCAUAUGCUAUCCUAAUu- -3' miRNA: 3'- aAUCCAUCGUAUACGAUAGGAUUAua -5' |
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| 28736 | 5' | -44.2 | NC_006146.1 | + | 163372 | 0.97 | 0.15674 |
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Target: 5'- -aGGGUAGUAUAUGCUAUCCUAGUGUa -3' miRNA: 3'- aaUCCAUCGUAUACGAUAGGAUUAUA- -5' |
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| 28736 | 5' | -44.2 | NC_006146.1 | + | 162997 | 0.95 | 0.196491 |
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Target: 5'- cUGGGUAGCAUAUGCUAUCCUAGc-- -3' miRNA: 3'- aAUCCAUCGUAUACGAUAGGAUUaua -5' |
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| 28736 | 5' | -44.2 | NC_006146.1 | + | 162812 | 0.92 | 0.279693 |
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Target: 5'- -cGGGUAGCAUAUGCUAUCCaGAUAUa -3' miRNA: 3'- aaUCCAUCGUAUACGAUAGGaUUAUA- -5' |
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| 28736 | 5' | -44.2 | NC_006146.1 | + | 163236 | 0.92 | 0.302491 |
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Target: 5'- --cGGUAGCAUAUGCUAUCCUAAUu- -3' miRNA: 3'- aauCCAUCGUAUACGAUAGGAUUAua -5' |
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| 28736 | 5' | -44.2 | NC_006146.1 | + | 162942 | 0.88 | 0.457727 |
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Target: 5'- gUUGGGaUAGCAUAUGCUAUCUUAAUAg -3' miRNA: 3'- -AAUCC-AUCGUAUACGAUAGGAUUAUa -5' |
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| 28736 | 5' | -44.2 | NC_006146.1 | + | 163289 | 0.88 | 0.467088 |
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Target: 5'- gUUGGGUAGCAUAUGCUAUCCcaauuuaggugggUAGUGUa -3' miRNA: 3'- -AAUCCAUCGUAUACGAUAGG-------------AUUAUA- -5' |
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| 28736 | 5' | -44.2 | NC_006146.1 | + | 162970 | 0.85 | 0.589184 |
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Target: 5'- -cGGGUAGCAUAUaCUAUCCUAAUAg -3' miRNA: 3'- aaUCCAUCGUAUAcGAUAGGAUUAUa -5' |
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| 28736 | 5' | -44.2 | NC_006146.1 | + | 163025 | 0.83 | 0.680685 |
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Target: 5'- ---cGUAGCAUAUGCUAUCCUAAUu- -3' miRNA: 3'- aaucCAUCGUAUACGAUAGGAUUAua -5' |
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| 28736 | 5' | -44.2 | NC_006146.1 | + | 88271 | 0.66 | 0.999999 |
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Target: 5'- -aAGGaugGGUAUGUGCUggCCUggGAUAUg -3' miRNA: 3'- aaUCCa--UCGUAUACGAuaGGA--UUAUA- -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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