miRNA display CGI


Results 1 - 20 of 27 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
26562 5' -55.6 NC_005357.1 + 41098 0.66 0.656176
Target:  5'- cACGgcuuccUCGcGCUUGUCgGCCUGGUggccgUCGCc -3'
miRNA:   3'- aUGC------AGCuUGAACAG-CGGGCCG-----AGCG- -5'
26562 5' -55.6 NC_005357.1 + 27017 0.66 0.645031
Target:  5'- uUGCG-CGuGCaucgGUCGUCCGGCaucuUCGCc -3'
miRNA:   3'- -AUGCaGCuUGaa--CAGCGGGCCG----AGCG- -5'
26562 5' -55.6 NC_005357.1 + 8507 0.66 0.638337
Target:  5'- cACGUCGAugccCUugaUGUCGCC-GGCgaacuugcccagguaUCGCa -3'
miRNA:   3'- aUGCAGCUu---GA---ACAGCGGgCCG---------------AGCG- -5'
26562 5' -55.6 NC_005357.1 + 28241 0.66 0.600434
Target:  5'- cGgGUCGGACUg--CGCCaGGCUCa- -3'
miRNA:   3'- aUgCAGCUUGAacaGCGGgCCGAGcg -5'
26562 5' -55.6 NC_005357.1 + 26135 0.66 0.600434
Target:  5'- -uCGUCGcggcaGAUUUGgCGCagCGGCUCGCc -3'
miRNA:   3'- auGCAGC-----UUGAACaGCGg-GCCGAGCG- -5'
26562 5' -55.6 NC_005357.1 + 11063 0.66 0.600434
Target:  5'- gGCGaCGAACUgcucgaacgUGUCCGGgUCGCg -3'
miRNA:   3'- aUGCaGCUUGAaca------GCGGGCCgAGCG- -5'
26562 5' -55.6 NC_005357.1 + 5034 0.66 0.600434
Target:  5'- cUGCGUUGAuau--UCGCCUGGUUgGCg -3'
miRNA:   3'- -AUGCAGCUugaacAGCGGGCCGAgCG- -5'
26562 5' -55.6 NC_005357.1 + 20619 0.67 0.578264
Target:  5'- gGCGUCGcaggucggUGUCgGCCUGcGCUCGUu -3'
miRNA:   3'- aUGCAGCuuga----ACAG-CGGGC-CGAGCG- -5'
26562 5' -55.6 NC_005357.1 + 12655 0.67 0.578264
Target:  5'- gGCGUCGggUc-GUCGCCCaucaugcgcaGGCgCGUg -3'
miRNA:   3'- aUGCAGCuuGaaCAGCGGG----------CCGaGCG- -5'
26562 5' -55.6 NC_005357.1 + 42211 0.67 0.544285
Target:  5'- aAUGcCGAggugcgccaguucGCcgUGUCGCCCGGCagCGUg -3'
miRNA:   3'- aUGCaGCU-------------UGa-ACAGCGGGCCGa-GCG- -5'
26562 5' -55.6 NC_005357.1 + 9856 0.67 0.534537
Target:  5'- gGCGUCGAugagcGUgGCaCCGGCgCGCu -3'
miRNA:   3'- aUGCAGCUugaa-CAgCG-GGCCGaGCG- -5'
26562 5' -55.6 NC_005357.1 + 28328 0.68 0.523779
Target:  5'- gGCGUCGGACUcgaUGgccuuggccUCGUCgGGCagCGCg -3'
miRNA:   3'- aUGCAGCUUGA---AC---------AGCGGgCCGa-GCG- -5'
26562 5' -55.6 NC_005357.1 + 27399 0.68 0.502521
Target:  5'- cAUGUCGcuCUUGUagucgucgcgCGCCUGGCgcacCGCg -3'
miRNA:   3'- aUGCAGCuuGAACA----------GCGGGCCGa---GCG- -5'
26562 5' -55.6 NC_005357.1 + 12864 0.68 0.502521
Target:  5'- gUugGUC-AGCUUGUUguagaGCCacaGGCUCGUg -3'
miRNA:   3'- -AugCAGcUUGAACAG-----CGGg--CCGAGCG- -5'
26562 5' -55.6 NC_005357.1 + 6418 0.68 0.481649
Target:  5'- -uCGUCGAACUcGUC-CUCG-CUCGCg -3'
miRNA:   3'- auGCAGCUUGAaCAGcGGGCcGAGCG- -5'
26562 5' -55.6 NC_005357.1 + 15694 0.69 0.451158
Target:  5'- aGCGggCGcGCUggcgGUgGCCCGGCuUUGCa -3'
miRNA:   3'- aUGCa-GCuUGAa---CAgCGGGCCG-AGCG- -5'
26562 5' -55.6 NC_005357.1 + 14683 0.69 0.441231
Target:  5'- -gUGUUGAgcGCUUGaaGCCCGGCcUGCa -3'
miRNA:   3'- auGCAGCU--UGAACagCGGGCCGaGCG- -5'
26562 5' -55.6 NC_005357.1 + 21996 0.69 0.421755
Target:  5'- aGCGUgCGggUUUcGUcggCGCCUGGCUCGa -3'
miRNA:   3'- aUGCA-GCuuGAA-CA---GCGGGCCGAGCg -5'
26562 5' -55.6 NC_005357.1 + 32829 0.7 0.393537
Target:  5'- aACGUCGAACUca-CGCCCgaGGUgCGCa -3'
miRNA:   3'- aUGCAGCUUGAacaGCGGG--CCGaGCG- -5'
26562 5' -55.6 NC_005357.1 + 29621 0.7 0.375418
Target:  5'- aGCGcCGGgcGCUUGUgGCCgGGCUUGa -3'
miRNA:   3'- aUGCaGCU--UGAACAgCGGgCCGAGCg -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.