miRNA display CGI


Results 1 - 20 of 36 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
21223 3' -56.3 NC_004778.3 + 53159 0.66 0.841875
Target:  5'- --cGGCGGuugcuguGGCGGCGGuUGCggcgGGGc -3'
miRNA:   3'- aaaCCGCUuuu----CCGUCGCC-GCGa---CCU- -5'
21223 3' -56.3 NC_004778.3 + 111357 0.66 0.833413
Target:  5'- -cUGGCGGAuuuGGUuuUGGCGCUGuGGg -3'
miRNA:   3'- aaACCGCUUuu-CCGucGCCGCGAC-CU- -5'
21223 3' -56.3 NC_004778.3 + 8782 0.66 0.832556
Target:  5'- aUUUGGCGcAGcagcuucagcggcGAGGCGGCGGgCGCg--- -3'
miRNA:   3'- -AAACCGC-UU-------------UUCCGUCGCC-GCGaccu -5'
21223 3' -56.3 NC_004778.3 + 53249 0.66 0.824757
Target:  5'- --cGGCGGuugcugcGGCGGCGGuUGCUGcGGc -3'
miRNA:   3'- aaaCCGCUuuu----CCGUCGCC-GCGAC-CU- -5'
21223 3' -56.3 NC_004778.3 + 41228 0.66 0.806894
Target:  5'- -gUGGUGGuguuGGGCA-CcGCGCUGGAc -3'
miRNA:   3'- aaACCGCUuu--UCCGUcGcCGCGACCU- -5'
21223 3' -56.3 NC_004778.3 + 71268 0.66 0.806894
Target:  5'- gUUGGCGAGggugucggcGAGGguGuCGGCGa-GGGu -3'
miRNA:   3'- aAACCGCUU---------UUCCguC-GCCGCgaCCU- -5'
21223 3' -56.3 NC_004778.3 + 85759 0.66 0.797706
Target:  5'- cUUGGCGAAuauGGCgucAGCGGuCGCacgUGGc -3'
miRNA:   3'- aAACCGCUUuu-CCG---UCGCC-GCG---ACCu -5'
21223 3' -56.3 NC_004778.3 + 12147 0.66 0.797706
Target:  5'- --cGGCGGcgcGGCAGCGGC-CUGc- -3'
miRNA:   3'- aaaCCGCUuuuCCGUCGCCGcGACcu -5'
21223 3' -56.3 NC_004778.3 + 71172 0.66 0.796779
Target:  5'- gUUGGCGAGgaagucggcAAGGguGUcgccgaaGGCGUUGGc -3'
miRNA:   3'- aAACCGCUU---------UUCCguCG-------CCGCGACCu -5'
21223 3' -56.3 NC_004778.3 + 113900 0.67 0.778863
Target:  5'- --gGGCGA--AGGCGGCGcCGCgGGu -3'
miRNA:   3'- aaaCCGCUuuUCCGUCGCcGCGaCCu -5'
21223 3' -56.3 NC_004778.3 + 71378 0.67 0.769227
Target:  5'- --aGGCGAGGGugucGGCGGgGGCGUaGGc -3'
miRNA:   3'- aaaCCGCUUUU----CCGUCgCCGCGaCCu -5'
21223 3' -56.3 NC_004778.3 + 71426 0.67 0.769227
Target:  5'- --aGGCGAGGGugucGGCGGgGGCGUaGGc -3'
miRNA:   3'- aaaCCGCUUUU----CCGUCgCCGCGaCCu -5'
21223 3' -56.3 NC_004778.3 + 53279 0.67 0.759461
Target:  5'- --cGGCGGuugcuguGGCGGCGGuUGCUGuGGc -3'
miRNA:   3'- aaaCCGCUuuu----CCGUCGCC-GCGAC-CU- -5'
21223 3' -56.3 NC_004778.3 + 71306 0.67 0.759461
Target:  5'- --cGGCGAGGGugucGGCGGgGGCGUaGGc -3'
miRNA:   3'- aaaCCGCUUUU----CCGUCgCCGCGaCCu -5'
21223 3' -56.3 NC_004778.3 + 25654 0.67 0.759461
Target:  5'- cUUGcGCGG--GGGcCGGCGGCGUgUGGGu -3'
miRNA:   3'- aAAC-CGCUuuUCC-GUCGCCGCG-ACCU- -5'
21223 3' -56.3 NC_004778.3 + 53189 0.67 0.759461
Target:  5'- --cGGCGGuugcuguGGCGGCGGuUGCUGuGGc -3'
miRNA:   3'- aaaCCGCUuuu----CCGUCGCC-GCGAC-CU- -5'
21223 3' -56.3 NC_004778.3 + 106185 0.67 0.749576
Target:  5'- -aUGGUGGAcaucuacGGcGCGGCGGUGUUGGc -3'
miRNA:   3'- aaACCGCUUu------UC-CGUCGCCGCGACCu -5'
21223 3' -56.3 NC_004778.3 + 29330 0.68 0.729486
Target:  5'- --aGGUGGc---GCGGCGcGCGCUGGGg -3'
miRNA:   3'- aaaCCGCUuuucCGUCGC-CGCGACCU- -5'
21223 3' -56.3 NC_004778.3 + 125961 0.68 0.688315
Target:  5'- --aGGagGAAAAGGCGGCGGaGCUGc- -3'
miRNA:   3'- aaaCCg-CUUUUCCGUCGCCgCGACcu -5'
21223 3' -56.3 NC_004778.3 + 128691 0.69 0.646348
Target:  5'- --cGGCGGAggcgGAGGCGGaGGCGgaGGu -3'
miRNA:   3'- aaaCCGCUU----UUCCGUCgCCGCgaCCu -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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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.