miRNA: 3'- caGCU--GACGC-----------CCAGGCUUAUGaCGAG- -5'
miRNA: 3'- cagCUGaCGCCCaGGCUuaUGACGag -5'
miRNA: 3'- caGCUGACG------CCCA--GGC--UUAUGACGAG- -5'
miRNA: 3'- caGCUGa-CG-CCCAGGCUUa---UGACGAG- -5'
miRNA: 3'- cAGCUGaCGcCCAGgCUUaUGACGAG- -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 | |||||||
| 6647 | 5' | -54.5 | NC_001847.1 | + | 31646 | 0.68 | 0.845459 |
|
Target: 5'- -aCGAguCUGUGcgaacacacgcGGUCCGAGUGCgGCUCu -3' miRNA: 3'- caGCU--GACGC-----------CCAGGCUUAUGaCGAG- -5' |
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| 6647 | 5' | -54.5 | NC_001847.1 | + | 28172 | 0.68 | 0.828658 |
|
Target: 5'- --gGACaGCGGGcCCGAggACUGCa- -3' miRNA: 3'- cagCUGaCGCCCaGGCUuaUGACGag -5' |
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| 6647 | 5' | -54.5 | NC_001847.1 | + | 127989 | 0.69 | 0.792887 |
|
Target: 5'- -aCGGCUGCgcgaucGGGUuuUCGcuGAUGCUGCUCa -3' miRNA: 3'- caGCUGACG------CCCA--GGC--UUAUGACGAG- -5' |
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| 6647 | 5' | -54.5 | NC_001847.1 | + | 12611 | 0.74 | 0.538642 |
|
Target: 5'- -gCGACcgGCaGGGUCCGGGcggcACUGCUCg -3' miRNA: 3'- caGCUGa-CG-CCCAGGCUUa---UGACGAG- -5' |
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| 6647 | 5' | -54.5 | NC_001847.1 | + | 88047 | 0.66 | 0.932936 |
|
Target: 5'- uUCGGC-GCuGGUCgGAAaGCUGUUCu -3' miRNA: 3'- cAGCUGaCGcCCAGgCUUaUGACGAG- -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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