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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
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R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 27241 | 3' | -49.6 | NC_005833.1 | + | 9404 | 0.69 | 0.809516 |
|
Target: 5'- gCAGCGGCuGGCGGUcGUAUUaCUgguUCGCg -3' miRNA: 3'- gGUUGUCG-CCGUCAaCAUAA-GG---AGUG- -5' |
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| 27241 | 3' | -49.6 | NC_005833.1 | + | 11618 | 0.66 | 0.930183 |
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Target: 5'- cUCAAgaAGCGGCc--UGUAaucUUCCUCGCg -3' miRNA: 3'- -GGUUg-UCGCCGucaACAU---AAGGAGUG- -5' |
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| 27241 | 3' | -49.6 | NC_005833.1 | + | 12624 | 1.12 | 0.002061 |
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Target: 5'- cCCAACAGCGGCAGUUGUAUUCCUCACc -3' miRNA: 3'- -GGUUGUCGCCGUCAACAUAAGGAGUG- -5' |
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| 27241 | 3' | -49.6 | NC_005833.1 | + | 19548 | 0.66 | 0.924165 |
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Target: 5'- gCCaAACGGCGGCuuAGUUGUuUUgCUUAg -3' miRNA: 3'- -GG-UUGUCGCCG--UCAACAuAAgGAGUg -5' |
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| 27241 | 3' | -49.6 | NC_005833.1 | + | 24843 | 0.66 | 0.930183 |
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Target: 5'- aCGACGGCGGCGGgauac--CCUCu- -3' miRNA: 3'- gGUUGUCGCCGUCaacauaaGGAGug -5' |
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| 27241 | 3' | -49.6 | NC_005833.1 | + | 37515 | 0.67 | 0.889502 |
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Target: 5'- -aGGCAGCGGCAGcac--UUCCUC-Cg -3' miRNA: 3'- ggUUGUCGCCGUCaacauAAGGAGuG- -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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