miRNA: 3'- gaGGCUCCGCUUCGa-------GCAGag---GCuuC- -5'
miRNA: 3'- gaGGCU--CCGCUUCGaGCaGAGGCUUC- -5'
miRNA: 3'- gaGGCUCCGCuuCGA--------GCAGAGGCUUc -5'
miRNA: 3'- -GAGGCUCCGCUUCGAGCAGAGGCUUC- -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 |
| Predicted miRNA align pattern | |||||||
| 10715 | 3' | -55.7 | NC_002794.1 | + | 129840 | 0.67 | 0.917973 |
|
Target: 5'- -gUCGAGGCGGAGCggaaccucCGUCgcgaaCGggGg -3' miRNA: 3'- gaGGCUCCGCUUCGa-------GCAGag---GCuuC- -5' |
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| 10715 | 3' | -55.7 | NC_002794.1 | + | 128623 | 0.67 | 0.912273 |
|
Target: 5'- -aCCGGuuGGCGAGGUaCGaUUCCGAGGa -3' miRNA: 3'- gaGGCU--CCGCUUCGaGCaGAGGCUUC- -5' |
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| 10715 | 3' | -55.7 | NC_002794.1 | + | 1223 | 0.67 | 0.912273 |
|
Target: 5'- -cCCGGGGCGu-GUUcuauaaccCGUCUCCGAGc -3' miRNA: 3'- gaGGCUCCGCuuCGA--------GCAGAGGCUUc -5' |
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| 10715 | 3' | -55.7 | NC_002794.1 | + | 181007 | 1.08 | 0.005151 |
|
Target: 5'- cCUCCGAGGCGAAGCUCGUCUCCGAAGc -3' miRNA: 3'- -GAGGCUCCGCUUCGAGCAGAGGCUUC- -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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