miRNA: 3'- cgaAUCu---CACAGGGUaCACG-----GCugCG- -5'
miRNA: 3'- -CGaauCUCACAGGguaCAC-GGCUGCG- -5'
miRNA: 3'- -CG-AAUCUC-ACAGGguac-ACGGCUGCG- -5'
miRNA: 3'- cgaaUCUcACaGGGUACACGGCuGCG- -5'
miRNA: 3'- -CGAAUCUCACAGGGUACACGGCUGCG- -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 | |||||||
| 22886 | 5' | -52.5 | NC_005137.2 | + | 43041 | 0.66 | 0.975269 |
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Target: 5'- --gUAGuuuuGUGUCCCAgGUGUuauuuCGugGCg -3' miRNA: 3'- cgaAUCu---CACAGGGUaCACG-----GCugCG- -5' |
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| 22886 | 5' | -52.5 | NC_005137.2 | + | 109402 | 0.66 | 0.969611 |
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Target: 5'- cGCgcuGGGUGUUCaaaGUGaCUGACGCg -3' miRNA: 3'- -CGaauCUCACAGGguaCAC-GGCUGCG- -5' |
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| 22886 | 5' | -52.5 | NC_005137.2 | + | 83007 | 0.66 | 0.96646 |
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Target: 5'- aGCuUUGGAGuUGUCCaaguaUGCUGGCGUa -3' miRNA: 3'- -CG-AAUCUC-ACAGGguac-ACGGCUGCG- -5' |
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| 22886 | 5' | -52.5 | NC_005137.2 | + | 107732 | 0.7 | 0.87582 |
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Target: 5'- ---aAGAuUGcCCCAUGUGCCG-UGCa -3' miRNA: 3'- cgaaUCUcACaGGGUACACGGCuGCG- -5' |
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| 22886 | 5' | -52.5 | NC_005137.2 | + | 63729 | 1.15 | 0.00209 |
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Target: 5'- cGCUUAGAGUGUCCCAUGUGCCGACGCa -3' miRNA: 3'- -CGAAUCUCACAGGGUACACGGCUGCG- -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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