miRNA display CGI


Results 1 - 20 of 23 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
1584 3' -57.2 NC_001347.2 + 145685 0.66 0.912833
Target:  5'- -cGCcuCAUCGcuGCUGGAuuuGGCCGcGACg -3'
miRNA:   3'- caUGucGUAGC--CGACCUu--CCGGC-CUG- -5'
1584 3' -57.2 NC_001347.2 + 76629 0.66 0.912833
Target:  5'- cUGCGGCcgCGGC-GGA-GGCCGa-- -3'
miRNA:   3'- cAUGUCGuaGCCGaCCUuCCGGCcug -5'
1584 3' -57.2 NC_001347.2 + 39525 0.66 0.912833
Target:  5'- -cGCGGCgacaugccGUUGcGCUGGGccaugGGcGCCGGACa -3'
miRNA:   3'- caUGUCG--------UAGC-CGACCU-----UC-CGGCCUG- -5'
1584 3' -57.2 NC_001347.2 + 39697 0.66 0.912833
Target:  5'- cGUGCuGGCGccgccUUGGCgccacgcagucUGGAAGGCCguGGACu -3'
miRNA:   3'- -CAUG-UCGU-----AGCCG-----------ACCUUCCGG--CCUG- -5'
1584 3' -57.2 NC_001347.2 + 1709 0.66 0.905132
Target:  5'- -gACGGCGcUCGGacgGGAgcugcgccggcgguGGGCCGGcACg -3'
miRNA:   3'- caUGUCGU-AGCCga-CCU--------------UCCGGCC-UG- -5'
1584 3' -57.2 NC_001347.2 + 1892 0.66 0.900828
Target:  5'- --cCAGCGUcugugcugCGGCUGGcuGGcGCUGGGCg -3'
miRNA:   3'- cauGUCGUA--------GCCGACCu-UC-CGGCCUG- -5'
1584 3' -57.2 NC_001347.2 + 143655 0.67 0.887938
Target:  5'- uGUACGGgAUCcuGGCgccGGAGGCCGGcCu -3'
miRNA:   3'- -CAUGUCgUAG--CCGac-CUUCCGGCCuG- -5'
1584 3' -57.2 NC_001347.2 + 82729 0.67 0.874188
Target:  5'- gGUGCAGCggCGGCUGagcGGUcauccuCGGACa -3'
miRNA:   3'- -CAUGUCGuaGCCGACcuuCCG------GCCUG- -5'
1584 3' -57.2 NC_001347.2 + 38319 0.67 0.874188
Target:  5'- -gGCGGCGccguaCGGCUGcGGAGGCacagguacagCGGACc -3'
miRNA:   3'- caUGUCGUa----GCCGAC-CUUCCG----------GCCUG- -5'
1584 3' -57.2 NC_001347.2 + 37265 0.67 0.867001
Target:  5'- -gGCGGCAgCGGa-GGuGGGCCGGGg -3'
miRNA:   3'- caUGUCGUaGCCgaCCuUCCGGCCUg -5'
1584 3' -57.2 NC_001347.2 + 208339 0.68 0.844253
Target:  5'- -cACAGCAggUGGCagaGGGAGGUCaGGGCc -3'
miRNA:   3'- caUGUCGUa-GCCGa--CCUUCCGG-CCUG- -5'
1584 3' -57.2 NC_001347.2 + 31662 0.69 0.801895
Target:  5'- -gAUAGUggcucggGUCGGCUGGucGGGCCgucgcGGACg -3'
miRNA:   3'- caUGUCG-------UAGCCGACCu-UCCGG-----CCUG- -5'
1584 3' -57.2 NC_001347.2 + 65719 0.69 0.785086
Target:  5'- -cACGGUggCGGCggUGGAGGGCgCGcGGCa -3'
miRNA:   3'- caUGUCGuaGCCG--ACCUUCCG-GC-CUG- -5'
1584 3' -57.2 NC_001347.2 + 94325 0.69 0.766883
Target:  5'- -cACGGCGuccUCGGCgucgucGGAGGCCGGuGCg -3'
miRNA:   3'- caUGUCGU---AGCCGac----CUUCCGGCC-UG- -5'
1584 3' -57.2 NC_001347.2 + 89750 0.7 0.748223
Target:  5'- cUGCGGCGUCGGCgcagGGAAuucguaGCCGcGAUa -3'
miRNA:   3'- cAUGUCGUAGCCGa---CCUUc-----CGGC-CUG- -5'
1584 3' -57.2 NC_001347.2 + 158427 0.7 0.738743
Target:  5'- cGUAC-GCGUgGGCUGGAAagccGuGCUGGGCc -3'
miRNA:   3'- -CAUGuCGUAgCCGACCUU----C-CGGCCUG- -5'
1584 3' -57.2 NC_001347.2 + 158007 0.7 0.709805
Target:  5'- -gGCGGCAgcugCGGCgguaGGAcacgcgGGcGCCGGACa -3'
miRNA:   3'- caUGUCGUa---GCCGa---CCU------UC-CGGCCUG- -5'
1584 3' -57.2 NC_001347.2 + 142570 0.7 0.699041
Target:  5'- -gGCGGCGUCGGCgGGAgcagcggGGGCggcggGGGCa -3'
miRNA:   3'- caUGUCGUAGCCGaCCU-------UCCGg----CCUG- -5'
1584 3' -57.2 NC_001347.2 + 156798 0.71 0.680302
Target:  5'- -gGCGGCAgCGGCagcGGcGGGCCaGGACg -3'
miRNA:   3'- caUGUCGUaGCCGa--CCuUCCGG-CCUG- -5'
1584 3' -57.2 NC_001347.2 + 180295 0.71 0.66043
Target:  5'- -cGCAGCGUCGGCgagcGAAGGUagaGGAg -3'
miRNA:   3'- caUGUCGUAGCCGac--CUUCCGg--CCUg -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.