miRNA: 3'- gCCCCACCUCg------------ACCCgC-GGGAUauuu -5'
miRNA: 3'- -GCCCCAcCUCGa----C-CCGCGGGauauuu -5'
miRNA: 3'- gCCCCA----------CCUCGA--CCCGCGGgauauuu -5'
miRNA: 3'- gCCCC------ACCUCGaCCCGCGGgauauuu -5'
miRNA: 3'- -GCCCCACcUCGACCcGCGGgauauuu -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
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| Predicted miRNA align pattern | |||||||
| 29547 | 3' | -59.2 | NC_006151.1 | + | 40790 | 0.66 | 0.716563 |
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Target: 5'- uGGGGUGGAGguggucuuguggaUGGGgGuCCCUGg--- -3' miRNA: 3'- gCCCCACCUCg------------ACCCgC-GGGAUauuu -5' |
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| 29547 | 3' | -59.2 | NC_006151.1 | + | 98208 | 0.66 | 0.720525 |
|
Target: 5'- gCGGGGUcGAGUgcgcgGcGGCGCCCg----- -3' miRNA: 3'- -GCCCCAcCUCGa----C-CCGCGGGauauuu -5' |
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| 29547 | 3' | -59.2 | NC_006151.1 | + | 5496 | 0.66 | 0.730375 |
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Target: 5'- uGGGGUuggaggagacGGGGCUccGGGCGCCa------ -3' miRNA: 3'- gCCCCA----------CCUCGA--CCCGCGGgauauuu -5' |
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| 29547 | 3' | -59.2 | NC_006151.1 | + | 41504 | 0.66 | 0.740141 |
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Target: 5'- aGGGGagccaaUGGGGC-GGGCGCCg------ -3' miRNA: 3'- gCCCC------ACCUCGaCCCGCGGgauauuu -5' |
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| 29547 | 3' | -59.2 | NC_006151.1 | + | 73599 | 0.66 | 0.740141 |
|
Target: 5'- cCGGGGUGcAGCUGG-CGCCg------ -3' miRNA: 3'- -GCCCCACcUCGACCcGCGGgauauuu -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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