miRNA display CGI


Results 1 - 20 of 39 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
11501 3' -54.2 NC_003085.1 + 32053 0.66 0.721229
Target:  5'- gGCGAGU----GGCCuGGGGgACAGCAa -3'
miRNA:   3'- -UGCUCAaguaCCGG-UUCCgUGUCGUg -5'
11501 3' -54.2 NC_003085.1 + 22965 0.66 0.717921
Target:  5'- gGCGAugUC--GGCCAcagacuccggcgugGGGUGCAGCACg -3'
miRNA:   3'- -UGCUcaAGuaCCGGU--------------UCCGUGUCGUG- -5'
11501 3' -54.2 NC_003085.1 + 28152 0.66 0.717921
Target:  5'- gACGAGgucgauuuccuuguaCAgguccugGGCCAggacgaagucuGGGCGCGGCACc -3'
miRNA:   3'- -UGCUCaa-------------GUa------CCGGU-----------UCCGUGUCGUG- -5'
11501 3' -54.2 NC_003085.1 + 46890 0.66 0.710172
Target:  5'- cCGcGUcgAUGGCgUAGGGUGCGGCACa -3'
miRNA:   3'- uGCuCAagUACCG-GUUCCGUGUCGUG- -5'
11501 3' -54.2 NC_003085.1 + 41118 0.66 0.710172
Target:  5'- -gGAGgccCA-GGCCGA-GCGCGGCACc -3'
miRNA:   3'- ugCUCaa-GUaCCGGUUcCGUGUCGUG- -5'
11501 3' -54.2 NC_003085.1 + 12256 0.66 0.710172
Target:  5'- aACGAGUUCAUGcGCgAccGGUGCAuggaacucGCACg -3'
miRNA:   3'- -UGCUCAAGUAC-CGgUu-CCGUGU--------CGUG- -5'
11501 3' -54.2 NC_003085.1 + 42888 0.66 0.710172
Target:  5'- uCGAGggUGaGGCCGAGGUcCuGCGCg -3'
miRNA:   3'- uGCUCaaGUaCCGGUUCCGuGuCGUG- -5'
11501 3' -54.2 NC_003085.1 + 48668 0.66 0.699033
Target:  5'- gACGuccacCGUGGCCuGGGGCcACAGCAg -3'
miRNA:   3'- -UGCucaa-GUACCGG-UUCCG-UGUCGUg -5'
11501 3' -54.2 NC_003085.1 + 2475 0.66 0.687825
Target:  5'- gACGcauAGU--GUGGCCAucaGCGCGGCGCu -3'
miRNA:   3'- -UGC---UCAagUACCGGUuc-CGUGUCGUG- -5'
11501 3' -54.2 NC_003085.1 + 40558 0.66 0.67656
Target:  5'- uCGAGgcgCAaGGCCuugguGGCGguGCGCa -3'
miRNA:   3'- uGCUCaa-GUaCCGGuu---CCGUguCGUG- -5'
11501 3' -54.2 NC_003085.1 + 13596 0.66 0.67656
Target:  5'- -gGAGgcgcgcCAUGacGCCAAGGCACaaguggGGCACg -3'
miRNA:   3'- ugCUCaa----GUAC--CGGUUCCGUG------UCGUG- -5'
11501 3' -54.2 NC_003085.1 + 537 0.67 0.653906
Target:  5'- gACGAcGUUCGgcaGCCAGGGCGgGGUg- -3'
miRNA:   3'- -UGCU-CAAGUac-CGGUUCCGUgUCGug -5'
11501 3' -54.2 NC_003085.1 + 8553 0.67 0.631167
Target:  5'- gGCGAGcucgUCAcGGCaggucuuGAGGuCGCGGCGCa -3'
miRNA:   3'- -UGCUCa---AGUaCCGg------UUCC-GUGUCGUG- -5'
11501 3' -54.2 NC_003085.1 + 17454 0.67 0.631167
Target:  5'- gGCGAGUcccggcgcUCGuacUGGCgaAAGGCACucGCGCg -3'
miRNA:   3'- -UGCUCA--------AGU---ACCGg-UUCCGUGu-CGUG- -5'
11501 3' -54.2 NC_003085.1 + 20112 0.67 0.619793
Target:  5'- gGCGGGgcuggagUCc-GGCCuaGAGGCGCuGCGCa -3'
miRNA:   3'- -UGCUCa------AGuaCCGG--UUCCGUGuCGUG- -5'
11501 3' -54.2 NC_003085.1 + 8066 0.67 0.619793
Target:  5'- cCGAGUcaggCAUGGCCGGuacauGaGCGgAGCGCa -3'
miRNA:   3'- uGCUCAa---GUACCGGUU-----C-CGUgUCGUG- -5'
11501 3' -54.2 NC_003085.1 + 12710 0.67 0.619793
Target:  5'- gGCGAGgcCGgcGGCCGAGGgGaggUAGCGCa -3'
miRNA:   3'- -UGCUCaaGUa-CCGGUUCCgU---GUCGUG- -5'
11501 3' -54.2 NC_003085.1 + 1300 0.67 0.608431
Target:  5'- -gGAGUUCucccgcGUGGCCGcgaAGGC-UGGCACu -3'
miRNA:   3'- ugCUCAAG------UACCGGU---UCCGuGUCGUG- -5'
11501 3' -54.2 NC_003085.1 + 26088 0.68 0.585782
Target:  5'- cACG-GUgacgCAUGGCCuGGGaCACGGCu- -3'
miRNA:   3'- -UGCuCAa---GUACCGGuUCC-GUGUCGug -5'
11501 3' -54.2 NC_003085.1 + 6790 0.68 0.563298
Target:  5'- gACGAGUaCcgGGCCc--GCACGGCGg -3'
miRNA:   3'- -UGCUCAaGuaCCGGuucCGUGUCGUg -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.