miRNA: 3'- -GGGGcCGGGUC-GCUaCCGGCUCCAGC- -5'
miRNA: 3'- -GGGG-CCGGGUCGCUa--------CCGGCUCCa---GC- -5'
miRNA: 3'- -GGGGCCGGGUCGCUAC-CGgc-UCCAGc -5'
miRNA: 3'- gGGg-----CCGG-GuCGCUACCGGCUCCAGc -5'
miRNA: 3'- -GGGGCCGGGUCGCUACCGGCUCCAGC- -5'
Results 41 - 45 of 45 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 | |||||||
| 7313 | 3' | -63.3 | NC_001900.1 | + | 36629 | 0.72 | 0.128752 |
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Target: 5'- cUCCCuGUCCAGaCGAcGGUCGAGGUUGc -3' miRNA: 3'- -GGGGcCGGGUC-GCUaCCGGCUCCAGC- -5' |
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| 7313 | 3' | -63.3 | NC_001900.1 | + | 47578 | 0.73 | 0.112764 |
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Target: 5'- gUCUCaGGCCCAGCGAcguuucgucGGCCGGGGguggCGa -3' miRNA: 3'- -GGGG-CCGGGUCGCUa--------CCGGCUCCa---GC- -5' |
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| 7313 | 3' | -63.3 | NC_001900.1 | + | 18178 | 0.73 | 0.101331 |
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Target: 5'- cUCCUGGUCCAGCGGUGuGCagcAGGUCu -3' miRNA: 3'- -GGGGCCGGGUCGCUAC-CGgc-UCCAGc -5' |
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| 7313 | 3' | -63.3 | NC_001900.1 | + | 8078 | 0.78 | 0.045938 |
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Target: 5'- gCCaacgaaGGCCaC-GCGAUGGCCGAGGUCa -3' miRNA: 3'- gGGg-----CCGG-GuCGCUACCGGCUCCAGc -5' |
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| 7313 | 3' | -63.3 | NC_001900.1 | + | 22252 | 1.09 | 0.000183 |
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Target: 5'- gCCCCGGCCCAGCGAUGGCCGAGGUCGu -3' miRNA: 3'- -GGGGCCGGGUCGCUACCGGCUCCAGC- -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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