miRNA: 3'- aC-GGGUUGua-GCCCC-UUGAGAUGGgC- -5'
miRNA: 3'- -ACGGgUUG-UAGCcCCUUGAGaUGGGc -5'
miRNA: 3'- aCGGGuuGUAG-CCC-CUUGAGA------UGGGC- -5'
miRNA: 3'- aCGGGUUG--UAGCCCcuuGAGAUG-GGC- -5'
miRNA: 3'- -ACGGGUUGUAGCCCCUUGAGAUGGGC- -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 | |||||||
| 17631 | 5' | -55.6 | NC_004466.2 | + | 25674 | 0.66 | 0.637173 |
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Target: 5'- gGcCCCAACccgUGGGGcGGCUCUACUgGc -3' miRNA: 3'- aC-GGGUUGua-GCCCC-UUGAGAUGGgC- -5' |
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| 17631 | 5' | -55.6 | NC_004466.2 | + | 37853 | 0.66 | 0.614922 |
|
Target: 5'- cUGCCgGGCuAUCGaGGAACUCgGCCUu -3' miRNA: 3'- -ACGGgUUG-UAGCcCCUUGAGaUGGGc -5' |
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| 17631 | 5' | -55.6 | NC_004466.2 | + | 15472 | 0.68 | 0.495501 |
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Target: 5'- aGUCCu-CAUCuGGGuGAGCUCUucauuaACCCGa -3' miRNA: 3'- aCGGGuuGUAG-CCC-CUUGAGA------UGGGC- -5' |
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| 17631 | 5' | -55.6 | NC_004466.2 | + | 36436 | 0.69 | 0.434828 |
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Target: 5'- aGCCCAGCccAUCGGGac-UUCUACaCCGa -3' miRNA: 3'- aCGGGUUG--UAGCCCcuuGAGAUG-GGC- -5' |
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| 17631 | 5' | -55.6 | NC_004466.2 | + | 41877 | 1.1 | 0.000631 |
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Target: 5'- aUGCCCAACAUCGGGGAACUCUACCCGg -3' miRNA: 3'- -ACGGGUUGUAGCCCCUUGAGAUGGGC- -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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