miRNA display CGI


Results 1 - 20 of 60 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
25612 5' -61.5 NC_005337.1 + 65661 0.66 0.629903
Target:  5'- uGGaguuCGaGGUGGUGCCCaGCgGCGAGa -3'
miRNA:   3'- gCCc---GCaCCACCACGGG-CGgUGCUUg -5'
25612 5' -61.5 NC_005337.1 + 96939 0.67 0.560847
Target:  5'- aGauCGUGGUggacgaGGUGCUCGCCGCGcGCg -3'
miRNA:   3'- gCccGCACCA------CCACGGGCGGUGCuUG- -5'
25612 5' -61.5 NC_005337.1 + 110339 0.67 0.570621
Target:  5'- cCGGGCG-GcGUcgcGcGcGCCUGCCGCGGGCg -3'
miRNA:   3'- -GCCCGCaC-CA---C-CaCGGGCGGUGCUUG- -5'
25612 5' -61.5 NC_005337.1 + 20016 0.67 0.600163
Target:  5'- gCGGGCGgaagaGGUGGagGUaCGUCugGAACc -3'
miRNA:   3'- -GCCCGCa----CCACCa-CGgGCGGugCUUG- -5'
25612 5' -61.5 NC_005337.1 + 89187 0.66 0.610063
Target:  5'- aGGGgGUGccgGGcGCUCGCCGCccGAGCa -3'
miRNA:   3'- gCCCgCACca-CCaCGGGCGGUG--CUUG- -5'
25612 5' -61.5 NC_005337.1 + 123001 0.66 0.610063
Target:  5'- uGGGCGUGGgcgaGG-GCCgacacauccCCGCGGACg -3'
miRNA:   3'- gCCCGCACCa---CCaCGGgc-------GGUGCUUG- -5'
25612 5' -61.5 NC_005337.1 + 109607 0.66 0.610063
Target:  5'- uCGcGGCGgaaGGccucGGUGUCCaggaagGCCGCGAGCg -3'
miRNA:   3'- -GC-CCGCa--CCa---CCACGGG------CGGUGCUUG- -5'
25612 5' -61.5 NC_005337.1 + 34396 0.66 0.614028
Target:  5'- aGGaGCGUGGcGGUGCuCCagggcaggcccgaccGCCugGCGGGCg -3'
miRNA:   3'- gCC-CGCACCaCCACG-GG---------------CGG--UGCUUG- -5'
25612 5' -61.5 NC_005337.1 + 81030 0.66 0.619979
Target:  5'- aCGGGcCGUaucUGGUGCCUGuCCAUGAu- -3'
miRNA:   3'- -GCCC-GCAcc-ACCACGGGC-GGUGCUug -5'
25612 5' -61.5 NC_005337.1 + 28265 0.67 0.560847
Target:  5'- gCGcaCGUGcGUGGUGUCCGUgauCACGAACc -3'
miRNA:   3'- -GCccGCAC-CACCACGGGCG---GUGCUUG- -5'
25612 5' -61.5 NC_005337.1 + 35871 0.67 0.55112
Target:  5'- -----aUGGUGGUcCCCGCCAUGAACc -3'
miRNA:   3'- gcccgcACCACCAcGGGCGGUGCUUG- -5'
25612 5' -61.5 NC_005337.1 + 3517 0.68 0.535667
Target:  5'- gCGGGCGUccacGGUGCacacgucggacccagCgGCCACGAGCa -3'
miRNA:   3'- -GCCCGCAcca-CCACG---------------GgCGGUGCUUG- -5'
25612 5' -61.5 NC_005337.1 + 45353 0.74 0.232755
Target:  5'- gGGGCGcgaGGUGGUGCUCaGCCA-GGACu -3'
miRNA:   3'- gCCCGCa--CCACCACGGG-CGGUgCUUG- -5'
25612 5' -61.5 NC_005337.1 + 118102 0.73 0.255577
Target:  5'- cCGGcGCGUGGUGGaGCaaaCGCggCGCGAGCg -3'
miRNA:   3'- -GCC-CGCACCACCaCGg--GCG--GUGCUUG- -5'
25612 5' -61.5 NC_005337.1 + 99417 0.73 0.261562
Target:  5'- gCGGGCGgcgGGUGcGUGCUgaGCCGCGGc- -3'
miRNA:   3'- -GCCCGCa--CCAC-CACGGg-CGGUGCUug -5'
25612 5' -61.5 NC_005337.1 + 66502 0.73 0.280202
Target:  5'- gCGaGCGUGGUGGUGCCCGUgaaguucaucaGCGAGu -3'
miRNA:   3'- -GCcCGCACCACCACGGGCGg----------UGCUUg -5'
25612 5' -61.5 NC_005337.1 + 128494 0.71 0.349143
Target:  5'- gCGGGCGUGcgucgcguacGUGGUcgcgcggcugccGCCCGCCGCcgugccagagcccGAGCg -3'
miRNA:   3'- -GCCCGCAC----------CACCA------------CGGGCGGUG-------------CUUG- -5'
25612 5' -61.5 NC_005337.1 + 69255 0.7 0.397282
Target:  5'- cCGGuGaCGcUGGUGGUGggcuuccacCCCGCCGCGcGCg -3'
miRNA:   3'- -GCC-C-GC-ACCACCAC---------GGGCGGUGCuUG- -5'
25612 5' -61.5 NC_005337.1 + 60897 0.68 0.494026
Target:  5'- uCGGGCGUGuGUGcGgGCaCgGCCACGGu- -3'
miRNA:   3'- -GCCCGCAC-CAC-CaCG-GgCGGUGCUug -5'
25612 5' -61.5 NC_005337.1 + 22259 0.68 0.531827
Target:  5'- uGGGUGUGGcUGaacGCCCGCgucaccagcgaCGCGGACg -3'
miRNA:   3'- gCCCGCACC-ACca-CGGGCG-----------GUGCUUG- -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.