miRNA: 3'- -GGGGAGuCGccAUAGAAGCGCCGcuu -5'
miRNA: 3'- gGGGAGUCGCCauaGA------------AGCGC-CGCUU- -5'
miRNA: 3'- -GGGGAGUCGC-CauagaaGCGCCGCUu -5'
miRNA: 3'- gggGAGUC-GCCaUAGAAGCGCCGCUu -5'
miRNA: 3'- -GGGGAGUCGCCAUAGAAGCGCCGCUU- -5'
Results 21 - 25 of 25 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 | |||||||
| 24747 | 3' | -57 | NC_005264.1 | + | 157848 | 0.67 | 0.85555 |
|
Target: 5'- cUCCCUUcGC--UGUCUUCGCGGCa-- -3' miRNA: 3'- -GGGGAGuCGccAUAGAAGCGCCGcuu -5' |
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| 24747 | 3' | -57 | NC_005264.1 | + | 31685 | 0.66 | 0.870542 |
|
Target: 5'- gCUCUCGGCGGgg-CUgcccgccaaaggUCGCGcGCGGGg -3' miRNA: 3'- gGGGAGUCGCCauaGA------------AGCGC-CGCUU- -5' |
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| 24747 | 3' | -57 | NC_005264.1 | + | 6996 | 0.66 | 0.884696 |
|
Target: 5'- cCUCCUCGGCGuGgcc---CGCGGCGGc -3' miRNA: 3'- -GGGGAGUCGC-CauagaaGCGCCGCUu -5' |
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| 24747 | 3' | -57 | NC_005264.1 | + | 133955 | 0.66 | 0.891447 |
|
Target: 5'- --gCUUGGcCGGgGUCUUCGCGGUGGc -3' miRNA: 3'- gggGAGUC-GCCaUAGAAGCGCCGCUu -5' |
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| 24747 | 3' | -57 | NC_005264.1 | + | 31253 | 1.07 | 0.003153 |
|
Target: 5'- cCCCCUCAGCGGUAUCUUCGCGGCGAAc -3' miRNA: 3'- -GGGGAGUCGCCAUAGAAGCGCCGCUU- -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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