miRNA: 3'- aCCugGaa-CGGCUGaa------GACGGCUCGC- -5'
miRNA: 3'- aCcUGgAACGGCUGaagACGGCUCGc -5'
miRNA: 3'- aCCUGGaaCGGCuGAag---ACGGCUCGC- -5'
miRNA: 3'- aCCUGGaaCGGCuGaaGACGGC--UCGC- -5'
Results 21 - 24 of 24 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
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Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 23185 | 3' | -56.9 | NC_005259.1 | + | 60258 | 0.7 | 0.443583 |
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Target: 5'- gGGugCaagGCUGGCcaccagcgCUGCCGGGCGg -3' miRNA: 3'- aCCugGaa-CGGCUGaa------GACGGCUCGC- -5' |
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| 23185 | 3' | -56.9 | NC_005259.1 | + | 45955 | 0.69 | 0.49262 |
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Target: 5'- aGcACgUUGCCGACgu-UGCCGAGCu -3' miRNA: 3'- aCcUGgAACGGCUGaagACGGCUCGc -5' |
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| 23185 | 3' | -56.9 | NC_005259.1 | + | 43839 | 0.68 | 0.554502 |
|
Target: 5'- aGGGCC--GCCG-CUcgccaUGCCGAGCGc -3' miRNA: 3'- aCCUGGaaCGGCuGAag---ACGGCUCGC- -5' |
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| 23185 | 3' | -56.9 | NC_005259.1 | + | 35636 | 0.66 | 0.682819 |
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Target: 5'- cGGGCC--GCCG-CcgCUGCCGcuGGCGa -3' miRNA: 3'- aCCUGGaaCGGCuGaaGACGGC--UCGC- -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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