miRNA display CGI


Results 1 - 20 of 24 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
11959 3' -53.5 NC_003278.1 + 12869 0.66 0.674481
Target:  5'- gGUUCGGacUCCagGGCG-AGGCG-GGCGGCg -3'
miRNA:   3'- -UAGGUU--AGG--CUGCuUCCGUuCCGUCG- -5'
11959 3' -53.5 NC_003278.1 + 8213 0.66 0.674481
Target:  5'- -gCCAGggcacaCgGGCGAGGGCGacaucugcgaacAGGUAGCc -3'
miRNA:   3'- uaGGUUa-----GgCUGCUUCCGU------------UCCGUCG- -5'
11959 3' -53.5 NC_003278.1 + 29626 0.66 0.662908
Target:  5'- aGUCCuuUCCGuuccuCGAGgccaccGGCGAGGcCGGUg -3'
miRNA:   3'- -UAGGuuAGGCu----GCUU------CCGUUCC-GUCG- -5'
11959 3' -53.5 NC_003278.1 + 25640 0.66 0.628045
Target:  5'- gGUCCugcucgcucAUCUGGCuAAGGCAgauaagcaGGGCAGUa -3'
miRNA:   3'- -UAGGu--------UAGGCUGcUUCCGU--------UCCGUCG- -5'
11959 3' -53.5 NC_003278.1 + 17217 0.67 0.616416
Target:  5'- -gCCuggUCGGCGAuugcuugcAGGCuugcGGGCAGCg -3'
miRNA:   3'- uaGGuuaGGCUGCU--------UCCGu---UCCGUCG- -5'
11959 3' -53.5 NC_003278.1 + 21783 0.67 0.616416
Target:  5'- cAUCCAggCCGGCGcGGGCAGcgacaccGCAGa -3'
miRNA:   3'- -UAGGUuaGGCUGCuUCCGUUc------CGUCg -5'
11959 3' -53.5 NC_003278.1 + 4675 0.67 0.581666
Target:  5'- cUCCAGUUgGGCGAAG--AGGGcCAGCu -3'
miRNA:   3'- uAGGUUAGgCUGCUUCcgUUCC-GUCG- -5'
11959 3' -53.5 NC_003278.1 + 28103 0.67 0.570162
Target:  5'- gGUUC-AUCCGcuGCGGGcgcGGCAAGuGCGGCg -3'
miRNA:   3'- -UAGGuUAGGC--UGCUU---CCGUUC-CGUCG- -5'
11959 3' -53.5 NC_003278.1 + 13189 0.67 0.570162
Target:  5'- gGUgCAggCCGcCcAGGGCAAcGGCAGCg -3'
miRNA:   3'- -UAgGUuaGGCuGcUUCCGUU-CCGUCG- -5'
11959 3' -53.5 NC_003278.1 + 18320 0.68 0.547334
Target:  5'- cUCCAucuugcgggCCaGCGggGGCAGGGU-GCa -3'
miRNA:   3'- uAGGUua-------GGcUGCuuCCGUUCCGuCG- -5'
11959 3' -53.5 NC_003278.1 + 2461 0.68 0.540541
Target:  5'- aGUCCAGUCCGcccAgGAAGGCGaguucaucccgcgccAGGguGg -3'
miRNA:   3'- -UAGGUUAGGC---UgCUUCCGU---------------UCCguCg -5'
11959 3' -53.5 NC_003278.1 + 22996 0.68 0.502633
Target:  5'- -aCCGG-CCGGC--AGGCAgagcAGGCAGCc -3'
miRNA:   3'- uaGGUUaGGCUGcuUCCGU----UCCGUCG- -5'
11959 3' -53.5 NC_003278.1 + 31546 0.69 0.470178
Target:  5'- -gCCAAcCUGGCGGccaggaaaacgcAGGgAGGGCGGCg -3'
miRNA:   3'- uaGGUUaGGCUGCU------------UCCgUUCCGUCG- -5'
11959 3' -53.5 NC_003278.1 + 13398 0.69 0.470178
Target:  5'- cUCCGggCCGAUGguGGCcAGGUAGa -3'
miRNA:   3'- uAGGUuaGGCUGCuuCCGuUCCGUCg -5'
11959 3' -53.5 NC_003278.1 + 16940 0.69 0.449146
Target:  5'- -gCCGcgCgcgCGGCGAagGGGCGAGGCGGg -3'
miRNA:   3'- uaGGUuaG---GCUGCU--UCCGUUCCGUCg -5'
11959 3' -53.5 NC_003278.1 + 27094 0.7 0.438826
Target:  5'- gAUCCGcAUCCGGCuguGGCAgcagGGGCAGa -3'
miRNA:   3'- -UAGGU-UAGGCUGcuuCCGU----UCCGUCg -5'
11959 3' -53.5 NC_003278.1 + 15576 0.7 0.428643
Target:  5'- uAUCCGA-CCGuCGAAGGCAAcGCGacGCa -3'
miRNA:   3'- -UAGGUUaGGCuGCUUCCGUUcCGU--CG- -5'
11959 3' -53.5 NC_003278.1 + 2656 0.71 0.370611
Target:  5'- gGUCCAG-CCGGCGucGaauuCGAGGCGGCc -3'
miRNA:   3'- -UAGGUUaGGCUGCuuCc---GUUCCGUCG- -5'
11959 3' -53.5 NC_003278.1 + 21283 0.71 0.352496
Target:  5'- -cCCAGgacgCCGGCGAAGGCGcGGUacaucaGGCc -3'
miRNA:   3'- uaGGUUa---GGCUGCUUCCGUuCCG------UCG- -5'
11959 3' -53.5 NC_003278.1 + 20897 0.73 0.278901
Target:  5'- -gCCGAgaaugCCGGCGAGggugauGGCAAGGCuGCc -3'
miRNA:   3'- uaGGUUa----GGCUGCUU------CCGUUCCGuCG- -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.