miRNA display CGI


Results 1 - 20 of 80 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
12365 3' -57 NC_003324.1 + 29924 1.13 0.000337
Target:  5'- cGGCACAGCCCACAGCAGCUUCCACGCc -3'
miRNA:   3'- -CCGUGUCGGGUGUCGUCGAAGGUGCG- -5'
12365 3' -57 NC_003324.1 + 29929 0.79 0.101141
Target:  5'- cGGCGCGGCCCACGGUccggacgggcgaggGGCgUCCuGCGUa -3'
miRNA:   3'- -CCGUGUCGGGUGUCG--------------UCGaAGG-UGCG- -5'
12365 3' -57 NC_003324.1 + 53573 0.76 0.15892
Target:  5'- gGGCAUcGCCgGCauucGGCcucGGCUUCCGCGCg -3'
miRNA:   3'- -CCGUGuCGGgUG----UCG---UCGAAGGUGCG- -5'
12365 3' -57 NC_003324.1 + 14799 0.75 0.181427
Target:  5'- cGGCgaagaacGCGGCCgGCaucGGCAGCUUCCugGg -3'
miRNA:   3'- -CCG-------UGUCGGgUG---UCGUCGAAGGugCg -5'
12365 3' -57 NC_003324.1 + 44932 0.75 0.197087
Target:  5'- gGGCAaaggcuGCCCACGGCAGCagcgggCACGCc -3'
miRNA:   3'- -CCGUgu----CGGGUGUCGUCGaag---GUGCG- -5'
12365 3' -57 NC_003324.1 + 50522 0.75 0.172382
Target:  5'- cGCGCAGCCCu--GCgAGCUgcaCCACGCc -3'
miRNA:   3'- cCGUGUCGGGuguCG-UCGAa--GGUGCG- -5'
12365 3' -57 NC_003324.1 + 44318 0.74 0.224825
Target:  5'- uGGCGCGGCCgAUAGCcucuGCagCCACGg -3'
miRNA:   3'- -CCGUGUCGGgUGUCGu---CGaaGGUGCg -5'
12365 3' -57 NC_003324.1 + 31243 0.74 0.207805
Target:  5'- uGGCGCAGgCCG-GGCAGCU-CCGCGa -3'
miRNA:   3'- -CCGUGUCgGGUgUCGUCGAaGGUGCg -5'
12365 3' -57 NC_003324.1 + 4909 0.73 0.243014
Target:  5'- cGCuuuCGGCuCCGCAgGCGGCUUCCGCu- -3'
miRNA:   3'- cCGu--GUCG-GGUGU-CGUCGAAGGUGcg -5'
12365 3' -57 NC_003324.1 + 49419 0.72 0.276028
Target:  5'- cGGCG-AGCCCgGCAGCGGCg-CUugGCu -3'
miRNA:   3'- -CCGUgUCGGG-UGUCGUCGaaGGugCG- -5'
12365 3' -57 NC_003324.1 + 9502 0.72 0.26915
Target:  5'- uGGCACGGCCgGCGGCAcCaa-CAUGCa -3'
miRNA:   3'- -CCGUGUCGGgUGUCGUcGaagGUGCG- -5'
12365 3' -57 NC_003324.1 + 44418 0.72 0.293108
Target:  5'- gGGCGCAGCgCGCGccGUGGCUgcagaggcuaucggCCGCGCc -3'
miRNA:   3'- -CCGUGUCGgGUGU--CGUCGAa-------------GGUGCG- -5'
12365 3' -57 NC_003324.1 + 41748 0.72 0.290205
Target:  5'- uGGCACAGUgCGCGuCGGCUacgUCGCGCc -3'
miRNA:   3'- -CCGUGUCGgGUGUcGUCGAa--GGUGCG- -5'
12365 3' -57 NC_003324.1 + 20672 0.72 0.297505
Target:  5'- uGGCgACGGCgCCACAGCAccGgaUCC-CGCu -3'
miRNA:   3'- -CCG-UGUCG-GGUGUCGU--CgaAGGuGCG- -5'
12365 3' -57 NC_003324.1 + 14500 0.71 0.335327
Target:  5'- cGGUGCAGCCaacacugCGCGGCAGggcgUCCGCGa -3'
miRNA:   3'- -CCGUGUCGG-------GUGUCGUCga--AGGUGCg -5'
12365 3' -57 NC_003324.1 + 39182 0.71 0.344286
Target:  5'- uGGCGCAG-CCACGGCGGCaaCCGaucauagGCg -3'
miRNA:   3'- -CCGUGUCgGGUGUCGUCGaaGGUg------CG- -5'
12365 3' -57 NC_003324.1 + 21067 0.71 0.351744
Target:  5'- cGGCAaacgcugccuuguCGGCCgcCGCGGCgcgugcugcgucGGCUUCCACGUc -3'
miRNA:   3'- -CCGU-------------GUCGG--GUGUCG------------UCGAAGGUGCG- -5'
12365 3' -57 NC_003324.1 + 21083 0.7 0.361013
Target:  5'- cGGCGCGGCCauCAUuGCGGCgaUCCgACGUg -3'
miRNA:   3'- -CCGUGUCGG--GUGuCGUCGa-AGG-UGCG- -5'
12365 3' -57 NC_003324.1 + 42664 0.7 0.405246
Target:  5'- cGuCACGGCCUACAGCgaGGCUgCCG-GCa -3'
miRNA:   3'- cC-GUGUCGGGUGUCG--UCGAaGGUgCG- -5'
12365 3' -57 NC_003324.1 + 24655 0.7 0.404328
Target:  5'- uGCGCuggucGCCCGCAGCGGUgacgaucUUCCG-GCa -3'
miRNA:   3'- cCGUGu----CGGGUGUCGUCG-------AAGGUgCG- -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.