miRNA: 3'- -GCC-CCACCUCG--A-------------CCCGCGGGauauuu -5'
miRNA: 3'- -GCCCCa---CCUCGa----C-CCGCGGGauauuu -5'
miRNA: 3'- -GCCCCAcCUCGaCCCgCGGGauauuu -5'
miRNA: 3'- gCCC-CACCUCgacCCGCGGGauauuu -5'
miRNA: 3'- -GCCCCA---CCUCga-CCCGCGGGAuauuu -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 | |||||||
| 29547 | 3' | -59.2 | NC_006151.1 | + | 138474 | 0.66 | 0.699604 |
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Target: 5'- gCGGaGGUGGGGCaaUcaugcuccucggcGGGCGCCCg----- -3' miRNA: 3'- -GCC-CCACCUCG--A-------------CCCGCGGGauauuu -5' |
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| 29547 | 3' | -59.2 | NC_006151.1 | + | 33951 | 0.67 | 0.690557 |
|
Target: 5'- cCGGGGgcucGGGGCgggacGcGGCGCCCg----- -3' miRNA: 3'- -GCCCCa---CCUCGa----C-CCGCGGGauauuu -5' |
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| 29547 | 3' | -59.2 | NC_006151.1 | + | 27247 | 0.67 | 0.690557 |
|
Target: 5'- uCGGGGUcGGGC-GGGgGCCCg----- -3' miRNA: 3'- -GCCCCAcCUCGaCCCgCGGGauauuu -5' |
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| 29547 | 3' | -59.2 | NC_006151.1 | + | 31729 | 0.67 | 0.690557 |
|
Target: 5'- gGGGcGUGGAGa--GGCGCCCg----- -3' miRNA: 3'- gCCC-CACCUCgacCCGCGGGauauuu -5' |
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| 29547 | 3' | -59.2 | NC_006151.1 | + | 44850 | 0.72 | 0.366491 |
|
Target: 5'- gCGGGGUcguGGAGgggGGGCGCCCUc---- -3' miRNA: 3'- -GCCCCA---CCUCga-CCCGCGGGAuauuu -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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