miRNA: 3'- gACGAGc-CGGCCGAG--------------UU-GCugCCAGA- -5'
miRNA: 3'- -GACGAGCCG---GCCGAG---UUGCug--CCAGa -5'
miRNA: 3'- gaCGaGCCGGCC-GAGU-----------UGCugCCaGa -5'
miRNA: 3'- gaCGAGccGgCCGAGUUG--CUGCCAGA- -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 | |||||||
| 7195 | 5' | -58.8 | NC_001900.1 | + | 43313 | 0.66 | 0.470136 |
|
Target: 5'- uUGCUCacGCUGGCUCccucacgucgggccGAcCGugGGUCUg -3' miRNA: 3'- gACGAGc-CGGCCGAG--------------UU-GCugCCAGA- -5' |
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| 7195 | 5' | -58.8 | NC_001900.1 | + | 45444 | 0.66 | 0.473114 |
|
Target: 5'- aCUGCUCGGUcagCGGCUUgcgGGCGuucaGGUUg -3' miRNA: 3'- -GACGAGCCG---GCCGAG---UUGCug--CCAGa -5' |
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| 7195 | 5' | -58.8 | NC_001900.1 | + | 45684 | 0.66 | 0.473113 |
|
Target: 5'- -gGC-CGGCCGGcCUCAccacaccuuucGCGugGGcCa -3' miRNA: 3'- gaCGaGCCGGCC-GAGU-----------UGCugCCaGa -5' |
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| 7195 | 5' | -58.8 | NC_001900.1 | + | 48438 | 0.66 | 0.483104 |
|
Target: 5'- -cGCUC--CgGGCUCGACcaGACGGUCUc -3' miRNA: 3'- gaCGAGccGgCCGAGUUG--CUGCCAGA- -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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