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
8908 5' -56.8 NC_002484.1 + 431 0.66 0.706269
Target:  5'- gCCGAACuUCUGgCGGuCGGAcgGCguuaguccaaGCCGGg -3'
miRNA:   3'- -GGCUUGuAGGCgGUC-GCCU--UG----------CGGCC- -5'
8908 5' -56.8 NC_002484.1 + 19356 0.66 0.706269
Target:  5'- aCCGAAUAUcCCGCuCAGCGaGAGuuCCGc -3'
miRNA:   3'- -GGCUUGUA-GGCG-GUCGC-CUUgcGGCc -5'
8908 5' -56.8 NC_002484.1 + 11968 0.66 0.705225
Target:  5'- gUCGAGaAUCgCGCCAGCGGccugggcGGCGUCa- -3'
miRNA:   3'- -GGCUUgUAG-GCGGUCGCC-------UUGCGGcc -5'
8908 5' -56.8 NC_002484.1 + 7717 0.66 0.695805
Target:  5'- cCCGAGCAccaUCUGCaGGCGGucGCGCa-- -3'
miRNA:   3'- -GGCUUGU---AGGCGgUCGCCu-UGCGgcc -5'
8908 5' -56.8 NC_002484.1 + 55504 0.66 0.685283
Target:  5'- gCCGAAcCAUCCGCgA-CGG-AC-CCGGa -3'
miRNA:   3'- -GGCUU-GUAGGCGgUcGCCuUGcGGCC- -5'
8908 5' -56.8 NC_002484.1 + 937 0.66 0.665168
Target:  5'- gCCGGACGgaaaaccucgaaggcCUGCUucucGGUGGuGGCGCCGGa -3'
miRNA:   3'- -GGCUUGUa--------------GGCGG----UCGCC-UUGCGGCC- -5'
8908 5' -56.8 NC_002484.1 + 34973 0.66 0.664106
Target:  5'- gCCGAcuuCAUCCGCacccacCGGAAagcccugguuCGCCGGu -3'
miRNA:   3'- -GGCUu--GUAGGCGguc---GCCUU----------GCGGCC- -5'
8908 5' -56.8 NC_002484.1 + 18719 0.67 0.642816
Target:  5'- gCGAGgGUCUuucgaGCCgAGCGGGAaacCGCUGGu -3'
miRNA:   3'- gGCUUgUAGG-----CGG-UCGCCUU---GCGGCC- -5'
8908 5' -56.8 NC_002484.1 + 27338 0.67 0.642816
Target:  5'- gCCG-GCGuUCCGCUGGCGG-AUGuUCGGg -3'
miRNA:   3'- -GGCuUGU-AGGCGGUCGCCuUGC-GGCC- -5'
8908 5' -56.8 NC_002484.1 + 18372 0.67 0.642816
Target:  5'- uCUGGGCG-CCGCaGGUaGAGCGCUGGc -3'
miRNA:   3'- -GGCUUGUaGGCGgUCGcCUUGCGGCC- -5'
8908 5' -56.8 NC_002484.1 + 25884 0.67 0.632153
Target:  5'- aCCGGccuguAUAUCUGCCAGCGcGcGGCGCUc- -3'
miRNA:   3'- -GGCU-----UGUAGGCGGUCGC-C-UUGCGGcc -5'
8908 5' -56.8 NC_002484.1 + 53962 0.67 0.62149
Target:  5'- gCCG-GCGUCaCGCCcGCaGAGCaaggaGCCGGg -3'
miRNA:   3'- -GGCuUGUAG-GCGGuCGcCUUG-----CGGCC- -5'
8908 5' -56.8 NC_002484.1 + 52673 0.67 0.610836
Target:  5'- gCUGGGCGauguauUCgGCUAGCGucAUGCCGGc -3'
miRNA:   3'- -GGCUUGU------AGgCGGUCGCcuUGCGGCC- -5'
8908 5' -56.8 NC_002484.1 + 54013 0.67 0.607642
Target:  5'- -aGGACAgcgcUCUGCCAguugagcuagagccGCGGAAuaggUGCCGGa -3'
miRNA:   3'- ggCUUGU----AGGCGGU--------------CGCCUU----GCGGCC- -5'
8908 5' -56.8 NC_002484.1 + 51073 0.68 0.589587
Target:  5'- aUGGugAUCCaCUcGCGGAACGCCu- -3'
miRNA:   3'- gGCUugUAGGcGGuCGCCUUGCGGcc -5'
8908 5' -56.8 NC_002484.1 + 40651 0.68 0.579009
Target:  5'- aCCGAGaaaCUGCCuGGUGGAACuuugagGCCGGu -3'
miRNA:   3'- -GGCUUguaGGCGG-UCGCCUUG------CGGCC- -5'
8908 5' -56.8 NC_002484.1 + 2300 0.68 0.557985
Target:  5'- aUGAACG-CCGCUauGGC-GAACGCCGa -3'
miRNA:   3'- gGCUUGUaGGCGG--UCGcCUUGCGGCc -5'
8908 5' -56.8 NC_002484.1 + 9763 0.68 0.547552
Target:  5'- aCUGGuACAUCC-UCAGCGGGgacGCGCCa- -3'
miRNA:   3'- -GGCU-UGUAGGcGGUCGCCU---UGCGGcc -5'
8908 5' -56.8 NC_002484.1 + 38355 0.69 0.537182
Target:  5'- aCGAcgACAUgcgCCGCCGGCucGACGCCGc -3'
miRNA:   3'- gGCU--UGUA---GGCGGUCGccUUGCGGCc -5'
8908 5' -56.8 NC_002484.1 + 54871 0.69 0.537182
Target:  5'- gCCGAGCAggaUCGCCAGCaccaGGGucaGCCaGGg -3'
miRNA:   3'- -GGCUUGUa--GGCGGUCG----CCUug-CGG-CC- -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.