miRNA display CGI


Results 1 - 20 of 21 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
24928 3' -54.3 NC_005284.1 + 13115 0.66 0.785283
Target:  5'- aAGCGGuuCGG-GAUUUGG-AUGGCCGa -3'
miRNA:   3'- -UCGCUu-GCCuCUAGACCaUGUCGGCg -5'
24928 3' -54.3 NC_005284.1 + 31540 0.66 0.775259
Target:  5'- cGGCGGcACGGcGGUCaauUGGgggcccgGCGcGCCGCa -3'
miRNA:   3'- -UCGCU-UGCCuCUAG---ACCa------UGU-CGGCG- -5'
24928 3' -54.3 NC_005284.1 + 18232 0.66 0.754773
Target:  5'- cAGC-AACGGccgaucacGAUCguuccgccaucGGUGCAGCCGCc -3'
miRNA:   3'- -UCGcUUGCCu-------CUAGa----------CCAUGUCGGCG- -5'
24928 3' -54.3 NC_005284.1 + 15740 0.66 0.754773
Target:  5'- cGCGGugugggGCGGA-AUgUGGgccgACAGCUGCa -3'
miRNA:   3'- uCGCU------UGCCUcUAgACCa---UGUCGGCG- -5'
24928 3' -54.3 NC_005284.1 + 8460 0.66 0.754773
Target:  5'- cGGCGGAgGGAGAggaaggCggcGGUGauccguuucaAGCCGCc -3'
miRNA:   3'- -UCGCUUgCCUCUa-----Ga--CCAUg---------UCGGCG- -5'
24928 3' -54.3 NC_005284.1 + 50200 0.66 0.750612
Target:  5'- aAGCGAACGG-GAUUcaaacgaaAGCCGCa -3'
miRNA:   3'- -UCGCUUGCCuCUAGaccaug--UCGGCG- -5'
24928 3' -54.3 NC_005284.1 + 36954 0.66 0.744334
Target:  5'- cAGCaGAA-GGAGAacgaaCUGcGUGCAGCCGa -3'
miRNA:   3'- -UCG-CUUgCCUCUa----GAC-CAUGUCGGCg -5'
24928 3' -54.3 NC_005284.1 + 31764 0.66 0.744334
Target:  5'- cGCGcuugaacuACGuGAGcgCUGGcGCAGCgGCa -3'
miRNA:   3'- uCGCu-------UGC-CUCuaGACCaUGUCGgCG- -5'
24928 3' -54.3 NC_005284.1 + 33132 0.67 0.73378
Target:  5'- cGUGAACGGGu-UgaGGgGCGGCUGCa -3'
miRNA:   3'- uCGCUUGCCUcuAgaCCaUGUCGGCG- -5'
24928 3' -54.3 NC_005284.1 + 198 0.67 0.73378
Target:  5'- cGGCGAggcGCGGGGcAUgUGGgagcGCGuuguGCCGCu -3'
miRNA:   3'- -UCGCU---UGCCUC-UAgACCa---UGU----CGGCG- -5'
24928 3' -54.3 NC_005284.1 + 17698 0.68 0.623346
Target:  5'- uGGCGucaucaaGACGGAGGUCacgGcGUuCGGCUGCa -3'
miRNA:   3'- -UCGC-------UUGCCUCUAGa--C-CAuGUCGGCG- -5'
24928 3' -54.3 NC_005284.1 + 13374 0.69 0.569368
Target:  5'- cGGUGGGCGGcGAUCUGucUGCGGCgGUu -3'
miRNA:   3'- -UCGCUUGCCuCUAGACc-AUGUCGgCG- -5'
24928 3' -54.3 NC_005284.1 + 19669 0.69 0.558472
Target:  5'- uGCGAAUGGGGAUgUGGUG-AGCauggaUGCg -3'
miRNA:   3'- uCGCUUGCCUCUAgACCAUgUCG-----GCG- -5'
24928 3' -54.3 NC_005284.1 + 12414 0.7 0.547636
Target:  5'- cGCGcAACGGcgGGAUCUcGGU-CAGCgCGCc -3'
miRNA:   3'- uCGC-UUGCC--UCUAGA-CCAuGUCG-GCG- -5'
24928 3' -54.3 NC_005284.1 + 39495 0.7 0.536867
Target:  5'- uAGCGGgcGCGGuuGGUCagugcaugUGGUGCucGCCGCg -3'
miRNA:   3'- -UCGCU--UGCCu-CUAG--------ACCAUGu-CGGCG- -5'
24928 3' -54.3 NC_005284.1 + 2371 0.7 0.505033
Target:  5'- -uCGAGCGGAGAgacGGUgACGGCCGa -3'
miRNA:   3'- ucGCUUGCCUCUagaCCA-UGUCGGCg -5'
24928 3' -54.3 NC_005284.1 + 23887 0.72 0.444028
Target:  5'- gAGCGAGCGGGGcagugCUGGgggAUcgAGCCGg -3'
miRNA:   3'- -UCGCUUGCCUCua---GACCa--UG--UCGGCg -5'
24928 3' -54.3 NC_005284.1 + 15263 0.73 0.387386
Target:  5'- cGCGAGCGcGAacuGGUCggucGGcACGGCCGCa -3'
miRNA:   3'- uCGCUUGC-CU---CUAGa---CCaUGUCGGCG- -5'
24928 3' -54.3 NC_005284.1 + 10647 0.74 0.31964
Target:  5'- cGGCGAagcgcuGCGcGAGGaaCUGGUGCGcGCCGCg -3'
miRNA:   3'- -UCGCU------UGC-CUCUa-GACCAUGU-CGGCG- -5'
24928 3' -54.3 NC_005284.1 + 19909 0.75 0.29663
Target:  5'- uGCGggUGGGGugcgaUGGUGguuCAGCCGCg -3'
miRNA:   3'- uCGCuuGCCUCuag--ACCAU---GUCGGCG- -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.