miRNA display CGI


Results 1 - 20 of 59 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
16406 3' -56.2 NC_004084.1 + 17753 0.66 0.741417
Target:  5'- uGCUCUGGauccgCGGCGAGaGCauguacugGACGUCg -3'
miRNA:   3'- -UGAGACCga---GCUGCUCcUG--------CUGCAGg -5'
16406 3' -56.2 NC_004084.1 + 16936 0.66 0.741417
Target:  5'- gUUC-GGCaUCGGCGGGcGucGCGACGUCg -3'
miRNA:   3'- uGAGaCCG-AGCUGCUC-C--UGCUGCAGg -5'
16406 3' -56.2 NC_004084.1 + 629 0.66 0.740395
Target:  5'- --gCUGGCgaucucgUCGugGAGcuccucGACGGCGUCg -3'
miRNA:   3'- ugaGACCG-------AGCugCUC------CUGCUGCAGg -5'
16406 3' -56.2 NC_004084.1 + 47483 0.66 0.731147
Target:  5'- --aCUGGCuguucgagguguUCGGCGAaGACGACGaacUCCc -3'
miRNA:   3'- ugaGACCG------------AGCUGCUcCUGCUGC---AGG- -5'
16406 3' -56.2 NC_004084.1 + 51843 0.66 0.731147
Target:  5'- cACUCucgaagagcgcgUGGCUCGACGAgucgaacuaccGGACGcCGgUCg -3'
miRNA:   3'- -UGAG------------ACCGAGCUGCU-----------CCUGCuGC-AGg -5'
16406 3' -56.2 NC_004084.1 + 35039 0.66 0.731147
Target:  5'- cCUCgagUGGCUCG-CGAcGGAuccgaacguCGACGUCg -3'
miRNA:   3'- uGAG---ACCGAGCuGCU-CCU---------GCUGCAGg -5'
16406 3' -56.2 NC_004084.1 + 20891 0.66 0.731147
Target:  5'- aGCgUCUacaaCUaCGACGAGGAcaucauCGACGUCCg -3'
miRNA:   3'- -UG-AGAcc--GA-GCUGCUCCU------GCUGCAGG- -5'
16406 3' -56.2 NC_004084.1 + 50952 0.66 0.731147
Target:  5'- uCUCcucCUCGACGAGGACGAaaCGagCCu -3'
miRNA:   3'- uGAGaccGAGCUGCUCCUGCU--GCa-GG- -5'
16406 3' -56.2 NC_004084.1 + 40813 0.66 0.720783
Target:  5'- cGCgaagCUGGCgaUCGACGuccacguuccggAGGuCGAgGUCCc -3'
miRNA:   3'- -UGa---GACCG--AGCUGC------------UCCuGCUgCAGG- -5'
16406 3' -56.2 NC_004084.1 + 55760 0.66 0.720783
Target:  5'- gGCUCgaacGaGCUCGACu-GGACGAUgaacacgaucgaGUCCg -3'
miRNA:   3'- -UGAGa---C-CGAGCUGcuCCUGCUG------------CAGG- -5'
16406 3' -56.2 NC_004084.1 + 4211 0.66 0.720783
Target:  5'- gACUCgagccgcugacGGUcggaaUCGACGAGGA-GGCGUCg -3'
miRNA:   3'- -UGAGa----------CCG-----AGCUGCUCCUgCUGCAGg -5'
16406 3' -56.2 NC_004084.1 + 39357 0.66 0.710334
Target:  5'- aAC-CUGcccGUUCG-UGAGGACGACG-CCg -3'
miRNA:   3'- -UGaGAC---CGAGCuGCUCCUGCUGCaGG- -5'
16406 3' -56.2 NC_004084.1 + 48494 0.66 0.710334
Target:  5'- cGCUgaGGCUCGuCGAGG-CGcucuUGUCUu -3'
miRNA:   3'- -UGAgaCCGAGCuGCUCCuGCu---GCAGG- -5'
16406 3' -56.2 NC_004084.1 + 57753 0.66 0.710334
Target:  5'- uGCUCgUGGCguucACGGaggagcuugcGGGCGAUGUCCu -3'
miRNA:   3'- -UGAG-ACCGagc-UGCU----------CCUGCUGCAGG- -5'
16406 3' -56.2 NC_004084.1 + 36158 0.66 0.699813
Target:  5'- --aCUGGaUCGACGu---CGACGUCCg -3'
miRNA:   3'- ugaGACCgAGCUGCuccuGCUGCAGG- -5'
16406 3' -56.2 NC_004084.1 + 15016 0.66 0.699813
Target:  5'- cGCUgcGGCUCGuCGAGcGuCGACGgCCa -3'
miRNA:   3'- -UGAgaCCGAGCuGCUC-CuGCUGCaGG- -5'
16406 3' -56.2 NC_004084.1 + 57310 0.66 0.699813
Target:  5'- cCUC---CUCGACGAGGGgGACG-CCu -3'
miRNA:   3'- uGAGaccGAGCUGCUCCUgCUGCaGG- -5'
16406 3' -56.2 NC_004084.1 + 29314 0.66 0.689229
Target:  5'- cGCUacCUGGa-UGGCGcGGAgGACGUCCc -3'
miRNA:   3'- -UGA--GACCgaGCUGCuCCUgCUGCAGG- -5'
16406 3' -56.2 NC_004084.1 + 38835 0.66 0.689229
Target:  5'- aACUCgucgucCUCGugGucuGGGACGuCGUCCu -3'
miRNA:   3'- -UGAGacc---GAGCugC---UCCUGCuGCAGG- -5'
16406 3' -56.2 NC_004084.1 + 7451 0.67 0.680723
Target:  5'- aACUCUcucaGGCUCGuuucguccucguCGAGGAggagaucagggucguCGACGUCg -3'
miRNA:   3'- -UGAGA----CCGAGCu-----------GCUCCU---------------GCUGCAGg -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.