miRNA: 3'- -CCGG---GGCCAGGUCGccUCGGUCGaGc -5'
miRNA: 3'- ccGGGGC-CAGguc---GCC--UCGGUCGAGC- -5'
miRNA: 3'- -CCGGg--GCCAGgUCGCCu----CGG-UCGAGC- -5'
miRNA: 3'- ccGG-GGCCAG----GUCGCCU-CGGuCGAGC- -5'
miRNA: 3'- cCGGGGCC-----AGGUCGCCu-----CGGUcGAGc -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 | |||||||
| 7171 | 5' | -63.8 | NC_001900.1 | + | 43103 | 0.68 | 0.201524 |
|
Target: 5'- cGGCCuggCCGGUUCAGC--AGCCAGCcCa -3' miRNA: 3'- -CCGG---GGCCAGGUCGccUCGGUCGaGc -5' |
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| 7171 | 5' | -63.8 | NC_001900.1 | + | 43468 | 0.66 | 0.291662 |
|
Target: 5'- -cCCCCGcGUCauggauCGGccGGCCAGCUCGg -3' miRNA: 3'- ccGGGGC-CAGguc---GCC--UCGGUCGAGC- -5' |
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| 7171 | 5' | -63.8 | NC_001900.1 | + | 45043 | 0.7 | 0.155767 |
|
Target: 5'- cGGCCagaUGGUCaGGCGGuccuuGCCuGGCUCGa -3' miRNA: 3'- -CCGGg--GCCAGgUCGCCu----CGG-UCGAGC- -5' |
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| 7171 | 5' | -63.8 | NC_001900.1 | + | 46001 | 0.68 | 0.222891 |
|
Target: 5'- -cCCgCCGGUCggguCGGCGGGuGCCcGCUCGa -3' miRNA: 3'- ccGG-GGCCAG----GUCGCCU-CGGuCGAGC- -5' |
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| 7171 | 5' | -63.8 | NC_001900.1 | + | 47883 | 0.67 | 0.23428 |
|
Target: 5'- cGCCCCGGccgcuUCCGGCGGcccaccGCCGcCUCc -3' miRNA: 3'- cCGGGGCC-----AGGUCGCCu-----CGGUcGAGc -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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