miRNA: 3'- -CUGCGAaUUGUaAUUAg--ACUCCGAGu -5'
miRNA: 3'- -CUGCGaAUUGUAAUUaGACUCCGAGu -5'
miRNA: 3'- cUGCGAAU--UGUAA---UUAG----ACUCCGAGU- -5'
miRNA: 3'- -CUGCGAAUUGUAAUUAGACUCCGAGU- -5'
Results 1 - 4 of 4 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 | |||||||
| 21923 | 5' | -45.5 | NC_004913.1 | + | 59827 | 0.67 | 0.992352 |
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Target: 5'- cGACGUUcAACGaUGGUgaaUGAGGCUCu -3' miRNA: 3'- -CUGCGAaUUGUaAUUAg--ACUCCGAGu -5' |
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| 21923 | 5' | -45.5 | NC_004913.1 | + | 28666 | 0.74 | 0.851252 |
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Target: 5'- gGACGCgUAAUGUUAA-CUGGGGCUUu -3' miRNA: 3'- -CUGCGaAUUGUAAUUaGACUCCGAGu -5' |
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| 21923 | 5' | -45.5 | NC_004913.1 | + | 39497 | 0.76 | 0.725277 |
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Target: 5'- aACGCUUAuuACAUUcagGAUCgucuUGAGGCUCAg -3' miRNA: 3'- cUGCGAAU--UGUAA---UUAG----ACUCCGAGU- -5' |
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| 21923 | 5' | -45.5 | NC_004913.1 | + | 28720 | 1.11 | 0.007975 |
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Target: 5'- aGACGCUUAACAUUAAUCUGAGGCUCAa -3' miRNA: 3'- -CUGCGAAUUGUAAUUAGACUCCGAGU- -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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