miRNA: 3'- -UGGUCGcacCGCCGCGa-UUUCCAGUc -5'
miRNA: 3'- -UGGUCGC--------AC-CGCCGCGAUuu-----CCAGUC- -5'
miRNA: 3'- -UGGUCGCa-------CCGCCGCGauu---UC-CAGUc -5'
miRNA: 3'- -UG-GUCGCA--CCGCCGCgauuUCCAgUC- -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 | |||||||
| 7017 | 3' | -57.1 | NC_001875.2 | + | 61738 | 0.7 | 0.618363 |
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Target: 5'- gGCCGGCu--GCGGCGCaaAGGGGUCAa -3' miRNA: 3'- -UGGUCGcacCGCCGCGa-UUUCCAGUc -5' |
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| 7017 | 3' | -57.1 | NC_001875.2 | + | 21027 | 0.7 | 0.587444 |
|
Target: 5'- cACCAGCGcguccaccUGcGCGGCGUUGuauccguGGUCGGc -3' miRNA: 3'- -UGGUCGC--------AC-CGCCGCGAUuu-----CCAGUC- -5' |
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| 7017 | 3' | -57.1 | NC_001875.2 | + | 131753 | 0.71 | 0.526675 |
|
Target: 5'- gGCCGGCGgcggaucgGGCGGCGCgucauuGGuGUCGu -3' miRNA: 3'- -UGGUCGCa-------CCGCCGCGauu---UC-CAGUc -5' |
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| 7017 | 3' | -57.1 | NC_001875.2 | + | 3154 | 0.66 | 0.806648 |
|
Target: 5'- gACgCGGCGUcgGGCGGCGagu-AGGUgAGc -3' miRNA: 3'- -UG-GUCGCA--CCGCCGCgauuUCCAgUC- -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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