miRNA: 3'- gGCCCUc-CUAUUUCa------AUAGGGACCGg -5'
miRNA: 3'- gGCCCUCCUauuucaaUAGG-GACCGG- -5'
miRNA: 3'- -GGcCCUCCUAU---UUCAa---UAGGGACCGG- -5'
miRNA: 3'- -GGCCCUCCuauUUCaAUAgGGaCCGG- -5'
miRNA: 3'- -GGCCCUCCUAUUUCAAUAGGGACCGG- -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 | |||||||
| 32074 | 5' | -51.2 | NC_007016.1 | + | 60799 | 0.72 | 0.847078 |
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Target: 5'- aCGGGAcaGGUAAAGagcuucgUGUCCCUGGUa -3' miRNA: 3'- gGCCCUc-CUAUUUCa------AUAGGGACCGg -5' |
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| 32074 | 5' | -51.2 | NC_007016.1 | + | 15435 | 0.72 | 0.837878 |
|
Target: 5'- aUGGGAGGA-------GUCCgCUGGCCa -3' miRNA: 3'- gGCCCUCCUauuucaaUAGG-GACCGG- -5' |
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| 32074 | 5' | -51.2 | NC_007016.1 | + | 63711 | 0.73 | 0.794122 |
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Target: 5'- aCC-GGAGGAUAuuaAAGUcgugAUUCUUGGCCa -3' miRNA: 3'- -GGcCCUCCUAU---UUCAa---UAGGGACCGG- -5' |
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| 32074 | 5' | -51.2 | NC_007016.1 | + | 78922 | 0.73 | 0.784697 |
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Target: 5'- uCCGGGAGGccuAGGcUGUgCCaGGCCa -3' miRNA: 3'- -GGCCCUCCuauUUCaAUAgGGaCCGG- -5' |
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| 32074 | 5' | -51.2 | NC_007016.1 | + | 15001 | 1.16 | 0.002838 |
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Target: 5'- aCCGGGAGGAUAAAGUUAUCCCUGGCCg -3' miRNA: 3'- -GGCCCUCCUAUUUCAAUAGGGACCGG- -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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