miRNA: 3'- aCUUGUCAaC---------ACCCGguCGa-UGAGCU- -5'
miRNA: 3'- aCUugUCaa----CACCCG-GUCGaUGAGCu -5'
miRNA: 3'- -ACUU-GUCaaCaCCCGGUCGAUgAGCU- -5'
miRNA: 3'- -ACUUGUCAACACCCGGUCGAUGAGCU- -5'
Results 1 - 4 of 4 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 | |||||||
| 6149 | 3' | -52.7 | NC_001826.1 | + | 113758 | 0.66 | 0.94382 |
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Target: 5'- gGAACAGUcGgaccaggaaUGGGCguGCcaGCUCGAg -3' miRNA: 3'- aCUUGUCAaC---------ACCCGguCGa-UGAGCU- -5' |
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| 6149 | 3' | -52.7 | NC_001826.1 | + | 41931 | 0.68 | 0.897716 |
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Target: 5'- aGAugGGccauggGUGGGCuCAGCaACUCGc -3' miRNA: 3'- aCUugUCaa----CACCCG-GUCGaUGAGCu -5' |
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| 6149 | 3' | -52.7 | NC_001826.1 | + | 31986 | 0.69 | 0.852505 |
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Target: 5'- uUGGAuCGGgcG-GGGCCGGUUGgUCGAg -3' miRNA: 3'- -ACUU-GUCaaCaCCCGGUCGAUgAGCU- -5' |
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| 6149 | 3' | -52.7 | NC_001826.1 | + | 119173 | 1.09 | 0.004058 |
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Target: 5'- cUGAACAGUUGUGGGCCAGCUACUCGAc -3' miRNA: 3'- -ACUUGUCAACACCCGGUCGAUGAGCU- -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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