miRNA display CGI


Results 1 - 20 of 56 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
28004 5' -57.7 NC_005887.1 + 40755 0.69 0.323627
Target:  5'- gCGAUCgccGUUGGCGCGCCGcGCgccgCCGAGCc -3'
miRNA:   3'- -GCUAG---UAGUCGCGCGGUcCG----GGCUUG- -5'
28004 5' -57.7 NC_005887.1 + 40169 0.68 0.356662
Target:  5'- cCGAUCAccgCGGCcgGCGUCAGG-CCGAAg -3'
miRNA:   3'- -GCUAGUa--GUCG--CGCGGUCCgGGCUUg -5'
28004 5' -57.7 NC_005887.1 + 38878 1.1 0.000339
Target:  5'- uCGAUCAUCAGCGCGCCAGGCCCGAACa -3'
miRNA:   3'- -GCUAGUAGUCGCGCGGUCCGGGCUUG- -5'
28004 5' -57.7 NC_005887.1 + 38638 0.7 0.307986
Target:  5'- gGAUCGcggUCGGCGCGC--GGCUCGAcgGCg -3'
miRNA:   3'- gCUAGU---AGUCGCGCGguCCGGGCU--UG- -5'
28004 5' -57.7 NC_005887.1 + 38234 0.66 0.479275
Target:  5'- uGAUCGUCugccGCGUGUCcuGCgCGAACu -3'
miRNA:   3'- gCUAGUAGu---CGCGCGGucCGgGCUUG- -5'
28004 5' -57.7 NC_005887.1 + 37198 0.66 0.479275
Target:  5'- aGcAUCAgCGGCGCGCCgacgucGGGCagcgcggucaugCCGAGCu -3'
miRNA:   3'- gC-UAGUaGUCGCGCGG------UCCG------------GGCUUG- -5'
28004 5' -57.7 NC_005887.1 + 35334 0.66 0.489564
Target:  5'- gCGcgCcgCGGCG-GCC-GGCCaCGAGCu -3'
miRNA:   3'- -GCuaGuaGUCGCgCGGuCCGG-GCUUG- -5'
28004 5' -57.7 NC_005887.1 + 34379 0.68 0.401176
Target:  5'- gCGuAUCAgagugCGGCcggGCGCgAGGCCCGGccuGCa -3'
miRNA:   3'- -GC-UAGUa----GUCG---CGCGgUCCGGGCU---UG- -5'
28004 5' -57.7 NC_005887.1 + 33741 0.77 0.093175
Target:  5'- gCGAggAUCAGCGCGCC-GGCCuucaCGAGCa -3'
miRNA:   3'- -GCUagUAGUCGCGCGGuCCGG----GCUUG- -5'
28004 5' -57.7 NC_005887.1 + 32794 0.67 0.428563
Target:  5'- gGAUCGgc-GCGCGCCgcuucacGGGCaCGAACa -3'
miRNA:   3'- gCUAGUaguCGCGCGG-------UCCGgGCUUG- -5'
28004 5' -57.7 NC_005887.1 + 32123 0.8 0.058612
Target:  5'- aGGUCAUCAGaCGCGCCGuccGGCgCGGGCa -3'
miRNA:   3'- gCUAGUAGUC-GCGCGGU---CCGgGCUUG- -5'
28004 5' -57.7 NC_005887.1 + 32028 0.66 0.521021
Target:  5'- uCGAUC-UCGGaUGUGCgGGGCaCCGAc- -3'
miRNA:   3'- -GCUAGuAGUC-GCGCGgUCCG-GGCUug -5'
28004 5' -57.7 NC_005887.1 + 30438 0.69 0.339854
Target:  5'- cCGA-CGUCGGgGCggggcauguuGCCGGGCUgGAACa -3'
miRNA:   3'- -GCUaGUAGUCgCG----------CGGUCCGGgCUUG- -5'
28004 5' -57.7 NC_005887.1 + 30202 0.66 0.489564
Target:  5'- gCGAUCGUCaccaaucuGGCGCGCgAcggcGGCCUGcuCg -3'
miRNA:   3'- -GCUAGUAG--------UCGCGCGgU----CCGGGCuuG- -5'
28004 5' -57.7 NC_005887.1 + 28831 0.67 0.410494
Target:  5'- gCGAUCGU-GGCGCGCau-GCCCGuGCc -3'
miRNA:   3'- -GCUAGUAgUCGCGCGgucCGGGCuUG- -5'
28004 5' -57.7 NC_005887.1 + 28527 0.73 0.192177
Target:  5'- gCGGUCAggcacgcUCAcGCGCGCCGGGCUgcUGAAUu -3'
miRNA:   3'- -GCUAGU-------AGU-CGCGCGGUCCGG--GCUUG- -5'
28004 5' -57.7 NC_005887.1 + 27918 0.67 0.410494
Target:  5'- uCGAUCgcgGUUGcGCGCGUCGGGUCCgcuuGAACg -3'
miRNA:   3'- -GCUAG---UAGU-CGCGCGGUCCGGG----CUUG- -5'
28004 5' -57.7 NC_005887.1 + 27627 0.69 0.323627
Target:  5'- uCGAUCGUCGccugcgcgaucGcCGCGCCcGGCCCGc-- -3'
miRNA:   3'- -GCUAGUAGU-----------C-GCGCGGuCCGGGCuug -5'
28004 5' -57.7 NC_005887.1 + 27252 0.66 0.469093
Target:  5'- ---gCAUC-GCGCGCC-GGCCCGc-- -3'
miRNA:   3'- gcuaGUAGuCGCGCGGuCCGGGCuug -5'
28004 5' -57.7 NC_005887.1 + 27132 0.67 0.459024
Target:  5'- uCGAcUCGUCGGCGaucacgcgGCCGaacGGCCaCGGGCg -3'
miRNA:   3'- -GCU-AGUAGUCGCg-------CGGU---CCGG-GCUUG- -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.