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 + 38878 1.1 0.000339
Target:  5'- uCGAUCAUCAGCGCGCCAGGCCCGAACa -3'
miRNA:   3'- -GCUAGUAGUCGCGCGGUCCGGGCUUG- -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 + 33741 0.77 0.093175
Target:  5'- gCGAggAUCAGCGCGCC-GGCCuucaCGAGCa -3'
miRNA:   3'- -GCUagUAGUCGCGCGGuCCGG----GCUUG- -5'
28004 5' -57.7 NC_005887.1 + 26072 0.74 0.16361
Target:  5'- --cUgGUCAGCGCGUCAgcGGCCCGcGCg -3'
miRNA:   3'- gcuAgUAGUCGCGCGGU--CCGGGCuUG- -5'
28004 5' -57.7 NC_005887.1 + 14348 0.74 0.16361
Target:  5'- gCGAUCGUgaagCAGCGUGCCGGGCaCCu--- -3'
miRNA:   3'- -GCUAGUA----GUCGCGCGGUCCG-GGcuug -5'
28004 5' -57.7 NC_005887.1 + 21808 0.73 0.177625
Target:  5'- aCGAcgUCcgCGGCGCuGCCGGGCgcgCCGAAUg -3'
miRNA:   3'- -GCU--AGuaGUCGCG-CGGUCCG---GGCUUG- -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 + 10038 0.72 0.214526
Target:  5'- uGGUCcuacgcacugCGGCGCGCCGgcuGGCCCGAc- -3'
miRNA:   3'- gCUAGua--------GUCGCGCGGU---CCGGGCUug -5'
28004 5' -57.7 NC_005887.1 + 10257 0.72 0.226217
Target:  5'- uGAUCGUCcGC-CGCCAGGUCaaCGGGCa -3'
miRNA:   3'- gCUAGUAGuCGcGCGGUCCGG--GCUUG- -5'
28004 5' -57.7 NC_005887.1 + 12419 0.7 0.278451
Target:  5'- uCGAUCccgagAUC-GUGCGCgAGGCCCGcGGCa -3'
miRNA:   3'- -GCUAG-----UAGuCGCGCGgUCCGGGC-UUG- -5'
28004 5' -57.7 NC_005887.1 + 15089 0.7 0.292928
Target:  5'- cCGAUCAUUGGCGaCG-CGGGCCgGcGCg -3'
miRNA:   3'- -GCUAGUAGUCGC-GCgGUCCGGgCuUG- -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 + 23979 0.7 0.311067
Target:  5'- gCGAgCGcCGGCGCGCCGucuacgcggaagucGCCCGAACg -3'
miRNA:   3'- -GCUaGUaGUCGCGCGGUc-------------CGGGCUUG- -5'
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 + 13124 0.69 0.323627
Target:  5'- aGGUCGacaccUCgAGCGUGCCGGGCCuCGucuCg -3'
miRNA:   3'- gCUAGU-----AG-UCGCGCGGUCCGG-GCuu-G- -5'
28004 5' -57.7 NC_005887.1 + 2424 0.69 0.323627
Target:  5'- -cGUCGUCGaCGCGCCcGGCUCGAucuGCg -3'
miRNA:   3'- gcUAGUAGUcGCGCGGuCCGGGCU---UG- -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 + 18876 0.69 0.331668
Target:  5'- aGAUCAagGGCGuCGCC-GGCugCCGGGCu -3'
miRNA:   3'- gCUAGUagUCGC-GCGGuCCG--GGCUUG- -5'
28004 5' -57.7 NC_005887.1 + 20532 0.69 0.331668
Target:  5'- --uUCAuUCGGCGCGCCcggcAGcGCCgCGGACg -3'
miRNA:   3'- gcuAGU-AGUCGCGCGG----UC-CGG-GCUUG- -5'
28004 5' -57.7 NC_005887.1 + 30438 0.69 0.339854
Target:  5'- cCGA-CGUCGGgGCggggcauguuGCCGGGCUgGAACa -3'
miRNA:   3'- -GCUaGUAGUCgCG----------CGGUCCGGgCUUG- -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.