miRNA: 3'- cCGG--GACCGGGGuCACCAGG---------GugACC- -5'
miRNA: 3'- -CCGGgaCCGG-GGUCACCagGGUGACc -5'
miRNA: 3'- ccGGGACCGgGGUcACCAGGGUGACC- -5'
miRNA: 3'- -CCGGGa--CCG-GGGUCACCAGGGU-GaCC- -5'
miRNA: 3'- -CCGGGACCGGGGUCACCAGGGUGACC- -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 | |||||||
| 6091 | 5' | -62.6 | NC_001824.1 | + | 29427 | 0.69 | 0.374582 |
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Target: 5'- uGCCuuCUGGCCCUuGUGGUCCacaaggcccUugUGGa -3' miRNA: 3'- cCGG--GACCGGGGuCACCAGG---------GugACC- -5' |
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| 6091 | 5' | -62.6 | NC_001824.1 | + | 29363 | 0.7 | 0.314471 |
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Target: 5'- gGGCCagGGCCuCCAGUGGaaCCAUUGa -3' miRNA: 3'- -CCGGgaCCGG-GGUCACCagGGUGACc -5' |
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| 6091 | 5' | -62.6 | NC_001824.1 | + | 29501 | 0.72 | 0.249981 |
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Target: 5'- -cCCCUGGUgUCAaUGGUUCCACUGGn -3' miRNA: 3'- ccGGGACCGgGGUcACCAGGGUGACC- -5' |
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| 6091 | 5' | -62.6 | NC_001824.1 | + | 29623 | 0.74 | 0.161639 |
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Target: 5'- gGGCCCgggGGCgCCUGGUGGUCCUAgCaGGc -3' miRNA: 3'- -CCGGGa--CCG-GGGUCACCAGGGU-GaCC- -5' |
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| 6091 | 5' | -62.6 | NC_001824.1 | + | 29476 | 1.11 | 0.000377 |
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Target: 5'- aGGCCCUGGCCCCAGUGGUCCCACUGGc -3' miRNA: 3'- -CCGGGACCGGGGUCACCAGGGUGACC- -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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