miRNA: 3'- gCGcUACU---UGUCUAGuGGCUAgGGCa -5'
miRNA: 3'- gCGCUa-----CUUGUCU---AGUggCUAGG-GCa -5'
miRNA: 3'- gCGCUAC---UUGUCUAGuGGCUaGGGCA- -5'
miRNA: 3'- -GCGCU--ACU----UGUCUAGUGGCU----AG-GGCa -5'
Results 21 - 24 of 24 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 | |||||||
| 7184 | 3' | -52.7 | NC_001900.1 | + | 15012 | 0.66 | 0.824685 |
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Target: 5'- aGCcAUGAguuGCGGAUC-CCGGUgCCGg -3' miRNA: 3'- gCGcUACU---UGUCUAGuGGCUAgGGCa -5' |
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| 7184 | 3' | -52.7 | NC_001900.1 | + | 33530 | 0.66 | 0.824685 |
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Target: 5'- gGCGAgaggccGAACAGAuccUCGuuGAUCCaCGa -3' miRNA: 3'- gCGCUa-----CUUGUCU---AGUggCUAGG-GCa -5' |
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| 7184 | 3' | -52.7 | NC_001900.1 | + | 18188 | 0.66 | 0.851621 |
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Target: 5'- aGCGGUGugcAGCAGGUCuCCGAcUUCGUc -3' miRNA: 3'- gCGCUAC---UUGUCUAGuGGCUaGGGCA- -5' |
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| 7184 | 3' | -52.7 | NC_001900.1 | + | 10968 | 0.66 | 0.851621 |
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Target: 5'- gCGCGAagUGGgaugGCAGGUCGCCGAcagaUCaUCGg -3' miRNA: 3'- -GCGCU--ACU----UGUCUAGUGGCU----AG-GGCa -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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