miRNA display CGI


Results 1 - 20 of 53 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
25988 5' -52.9 NC_005340.1 + 5587 0.66 0.638954
Target:  5'- aCAGCGAGuCGCucGCGGCAgAuauCAUCa -3'
miRNA:   3'- gGUCGUUUuGCGu-CGCCGUgUc--GUAG- -5'
25988 5' -52.9 NC_005340.1 + 20642 0.68 0.511007
Target:  5'- gCCGGUAGuGCGCuGaCGGC-CAGCGg- -3'
miRNA:   3'- -GGUCGUUuUGCGuC-GCCGuGUCGUag -5'
25988 5' -52.9 NC_005340.1 + 14 0.67 0.556712
Target:  5'- -aAGCAuuGCGCgccAGCGGUGguGCGUa -3'
miRNA:   3'- ggUCGUuuUGCG---UCGCCGUguCGUAg -5'
25988 5' -52.9 NC_005340.1 + 28749 0.67 0.591747
Target:  5'- -gAGCAAAACGCAGC--UAUAGCGa- -3'
miRNA:   3'- ggUCGUUUUGCGUCGccGUGUCGUag -5'
25988 5' -52.9 NC_005340.1 + 17686 0.67 0.591747
Target:  5'- gCCGGUAAcauGGcCGCAGCaGGCGCuGCcgggGUCg -3'
miRNA:   3'- -GGUCGUU---UU-GCGUCG-CCGUGuCG----UAG- -5'
25988 5' -52.9 NC_005340.1 + 24425 0.67 0.592922
Target:  5'- aCCAGCAAAgaaaaagccgcuaaGCGUAGCcGCACccuuaucaacgucaaAGCAUg -3'
miRNA:   3'- -GGUCGUUU--------------UGCGUCGcCGUG---------------UCGUAg -5'
25988 5' -52.9 NC_005340.1 + 16365 0.67 0.603518
Target:  5'- aCCGGCGAAAuCGUGGCGGUcgaGGUgGUCa -3'
miRNA:   3'- -GGUCGUUUU-GCGUCGCCGug-UCG-UAG- -5'
25988 5' -52.9 NC_005340.1 + 27779 0.66 0.627133
Target:  5'- aCAGCAAAugGaa-CGGCGcCAGCccGUCg -3'
miRNA:   3'- gGUCGUUUugCgucGCCGU-GUCG--UAG- -5'
25988 5' -52.9 NC_005340.1 + 25939 0.66 0.631861
Target:  5'- gCAGgAAGACGCgAGCGccacaucagcaacgcGCGCAGCcguAUCg -3'
miRNA:   3'- gGUCgUUUUGCG-UCGC---------------CGUGUCG---UAG- -5'
25988 5' -52.9 NC_005340.1 + 12292 0.69 0.477776
Target:  5'- gCCGGUcAGACGCAGCuuguuaaugaGGUcUGGCGUCa -3'
miRNA:   3'- -GGUCGuUUUGCGUCG----------CCGuGUCGUAG- -5'
25988 5' -52.9 NC_005340.1 + 11515 0.69 0.456225
Target:  5'- uUCAGCGGGugGagcuGGCGGCACcGGUcgCg -3'
miRNA:   3'- -GGUCGUUUugCg---UCGCCGUG-UCGuaG- -5'
25988 5' -52.9 NC_005340.1 + 9314 0.69 0.456225
Target:  5'- gUCAGCAGcAGCGCAucaGGCgACAGCAg- -3'
miRNA:   3'- -GGUCGUU-UUGCGUcg-CCG-UGUCGUag -5'
25988 5' -52.9 NC_005340.1 + 9490 0.73 0.266731
Target:  5'- aCCGGCAGgguacAGCGCA-UGGCGCGgguGCAUCa -3'
miRNA:   3'- -GGUCGUU-----UUGCGUcGCCGUGU---CGUAG- -5'
25988 5' -52.9 NC_005340.1 + 629 0.73 0.274122
Target:  5'- uCUGGUAAuacuUGCGGCGGaACAGCGUCg -3'
miRNA:   3'- -GGUCGUUuu--GCGUCGCCgUGUCGUAG- -5'
25988 5' -52.9 NC_005340.1 + 16823 0.72 0.321928
Target:  5'- gUCAGUcuGGCgGCGGUGGCGCAGUccgaaGUCg -3'
miRNA:   3'- -GGUCGuuUUG-CGUCGCCGUGUCG-----UAG- -5'
25988 5' -52.9 NC_005340.1 + 17600 0.71 0.357115
Target:  5'- gCCAGCGuGAgGCAcUGGCGC-GCGUCa -3'
miRNA:   3'- -GGUCGUuUUgCGUcGCCGUGuCGUAG- -5'
25988 5' -52.9 NC_005340.1 + 20471 0.7 0.384266
Target:  5'- aCCAuuGCAAAGCGUAacaaacuGaCGGC-CAGCGUCg -3'
miRNA:   3'- -GGU--CGUUUUGCGU-------C-GCCGuGUCGUAG- -5'
25988 5' -52.9 NC_005340.1 + 867 0.69 0.445647
Target:  5'- gCCGGU--GACGCuGUGGCGCuGC-UCa -3'
miRNA:   3'- -GGUCGuuUUGCGuCGCCGUGuCGuAG- -5'
25988 5' -52.9 NC_005340.1 + 10067 0.69 0.445647
Target:  5'- aCCGGU---GCGCuGaCGGUcaGCGGCAUCa -3'
miRNA:   3'- -GGUCGuuuUGCGuC-GCCG--UGUCGUAG- -5'
25988 5' -52.9 NC_005340.1 + 10606 0.69 0.445647
Target:  5'- aUCAGCuuuGAGCGCGGCGaCACuGGCGa- -3'
miRNA:   3'- -GGUCGu--UUUGCGUCGCcGUG-UCGUag -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.