miRNA: 3'- -CGCCGUCACCAGAUCCACAGCGUCAG- -5'
miRNA: 3'- cgCCGUC-ACCaGAUCCaCAGCGuCAG- -5'
miRNA: 3'- -CGCCGUCA--CCAGAUCCacAGCG--UCAG- -5'
miRNA: 3'- -CGCCGUCACCa--GAUCCaca-GCGUCag -5'
miRNA: 3'- -CG-CCGUcACCAG--AUCCACAGcGUCAg -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 | |||||||
| 678 | 3' | -56 | AC_000018.1 | + | 27690 | 1.12 | 0.000275 |
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Target: 5'- gGCGGCAGUGGUCUAGGUGUCGCAGUCg -3' miRNA: 3'- -CGCCGUCACCAGAUCCACAGCGUCAG- -5' |
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| 678 | 3' | -56 | AC_000018.1 | + | 12485 | 0.69 | 0.382688 |
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Target: 5'- -aGGCGGuUGGcCUGGG-GUUGCuGUCu -3' miRNA: 3'- cgCCGUC-ACCaGAUCCaCAGCGuCAG- -5' |
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| 678 | 3' | -56 | AC_000018.1 | + | 26347 | 0.68 | 0.420599 |
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Target: 5'- aGCGGUGGUcgGGUUUGGGaaUCGCccGGUCu -3' miRNA: 3'- -CGCCGUCA--CCAGAUCCacAGCG--UCAG- -5' |
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| 678 | 3' | -56 | AC_000018.1 | + | 30599 | 0.68 | 0.430426 |
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Target: 5'- aGUGGCGGUGGaagCUAGGgcaaUGCAGg- -3' miRNA: 3'- -CGCCGUCACCa--GAUCCaca-GCGUCag -5' |
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| 678 | 3' | -56 | AC_000018.1 | + | 2106 | 0.67 | 0.450476 |
|
Target: 5'- cGCuGGCA-UGGUCggUGGGUGUCuCAGUa -3' miRNA: 3'- -CG-CCGUcACCAG--AUCCACAGcGUCAg -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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