miRNA display CGI


Results 1 - 20 of 93 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
23853 3' -52.6 NC_005261.1 + 967 0.67 0.95788
Target:  5'- cCCGUAgagcggcgGGCCGcgcGCAGAgcgGAGGAGaCGg -3'
miRNA:   3'- -GGCAUa-------CCGGCu--CGUCU---UUCUUCgGC- -5'
23853 3' -52.6 NC_005261.1 + 2570 0.71 0.815785
Target:  5'- gCGUGUGGuacuccCCGGGCGGcacgcggcGGAAGCCGc -3'
miRNA:   3'- gGCAUACC------GGCUCGUCuu------UCUUCGGC- -5'
23853 3' -52.6 NC_005261.1 + 2607 0.67 0.965022
Target:  5'- gCCGUcgGcggcggggccGCCGGGCGGcauGggGCCc -3'
miRNA:   3'- -GGCAuaC----------CGGCUCGUCuuuCuuCGGc -5'
23853 3' -52.6 NC_005261.1 + 2785 0.68 0.940745
Target:  5'- cCCGaggGGCUGccgccGGCGGccgGGAGggGCCGg -3'
miRNA:   3'- -GGCauaCCGGC-----UCGUC---UUUCuuCGGC- -5'
23853 3' -52.6 NC_005261.1 + 5848 0.67 0.959382
Target:  5'- aCGgc-GGCCGAgagaggggucucgacGaCGGAGAGAGGCUGg -3'
miRNA:   3'- gGCauaCCGGCU---------------C-GUCUUUCUUCGGC- -5'
23853 3' -52.6 NC_005261.1 + 6415 0.67 0.960484
Target:  5'- gCGU-UGGCCcggccugcucgcgaGGGCGGuccGGggGCCGg -3'
miRNA:   3'- gGCAuACCGG--------------CUCGUCuu-UCuuCGGC- -5'
23853 3' -52.6 NC_005261.1 + 9616 0.66 0.968255
Target:  5'- cCCGggGUGGgCaGGCGGGGguGGggGCUGg -3'
miRNA:   3'- -GGCa-UACCgGcUCGUCUU--UCuuCGGC- -5'
23853 3' -52.6 NC_005261.1 + 13695 0.69 0.901204
Target:  5'- gCGUggGGCgGGGCGGGcuGGggGCgGg -3'
miRNA:   3'- gGCAuaCCGgCUCGUCUu-UCuuCGgC- -5'
23853 3' -52.6 NC_005261.1 + 15311 0.69 0.887682
Target:  5'- gUCGUcgGaGCCGGGCccGucGAAGCCGu -3'
miRNA:   3'- -GGCAuaC-CGGCUCGucUuuCUUCGGC- -5'
23853 3' -52.6 NC_005261.1 + 15395 0.67 0.95788
Target:  5'- gCCGUcgauGCCGAcgcGCAGAAAGuaGAGCCc -3'
miRNA:   3'- -GGCAuac-CGGCU---CGUCUUUC--UUCGGc -5'
23853 3' -52.6 NC_005261.1 + 15649 0.66 0.979073
Target:  5'- gCCGcccGGCCGGGagcuggugcucCAGGAAGAucAGCCu -3'
miRNA:   3'- -GGCauaCCGGCUC-----------GUCUUUCU--UCGGc -5'
23853 3' -52.6 NC_005261.1 + 15930 0.74 0.647233
Target:  5'- gCCGg--GGCCGGGgccCGGgcAGGAGCCGg -3'
miRNA:   3'- -GGCauaCCGGCUC---GUCuuUCUUCGGC- -5'
23853 3' -52.6 NC_005261.1 + 16180 0.69 0.91375
Target:  5'- gCGggcGUGGCgGGGguGGGcGGggGCCGc -3'
miRNA:   3'- gGCa--UACCGgCUCguCUU-UCuuCGGC- -5'
23853 3' -52.6 NC_005261.1 + 16266 0.73 0.729868
Target:  5'- gCCGg--GGCCGGGCuucggcucgcccGGggGGgcGCCGu -3'
miRNA:   3'- -GGCauaCCGGCUCG------------UCuuUCuuCGGC- -5'
23853 3' -52.6 NC_005261.1 + 16395 0.71 0.82458
Target:  5'- gCCGUcgucGUcGCCGGGCGGugcgGGAGAGGCCc -3'
miRNA:   3'- -GGCA----UAcCGGCUCGUC----UUUCUUCGGc -5'
23853 3' -52.6 NC_005261.1 + 21160 0.7 0.880564
Target:  5'- aCGgcccuGCCGAGCAGAGAuGcAGCCGc -3'
miRNA:   3'- gGCauac-CGGCUCGUCUUU-CuUCGGC- -5'
23853 3' -52.6 NC_005261.1 + 22208 0.67 0.949798
Target:  5'- --uUcgGGCCGA--GGGAAGAAGCCu -3'
miRNA:   3'- ggcAuaCCGGCUcgUCUUUCUUCGGc -5'
23853 3' -52.6 NC_005261.1 + 22971 0.66 0.968255
Target:  5'- -----aGGCCGAGgacCGGGAGGAGGCgGc -3'
miRNA:   3'- ggcauaCCGGCUC---GUCUUUCUUCGgC- -5'
23853 3' -52.6 NC_005261.1 + 23309 1.12 0.003785
Target:  5'- cCCGUAUGGCCGAGCAGAAAGAAGCCGa -3'
miRNA:   3'- -GGCAUACCGGCUCGUCUUUCUUCGGC- -5'
23853 3' -52.6 NC_005261.1 + 24546 0.69 0.907601
Target:  5'- aCGUAccUGGCCGGGCGGcgccAGGucccAGCCc -3'
miRNA:   3'- gGCAU--ACCGGCUCGUCuu--UCU----UCGGc -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.