miRNA display CGI


Results 1 - 20 of 56 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
23971 3' -62.1 NC_005262.1 + 6554 0.66 0.414677
Target:  5'- cUGGGCccGCGucgaugcCGGCgucucgCCGGAGCCGAa -3'
miRNA:   3'- uAUCCG--CGCua-----GCCG------GGCCUCGGCUg -5'
23971 3' -62.1 NC_005262.1 + 63404 0.66 0.405789
Target:  5'- -gAGGCGUcgGAgaaGGCCCGcaaAGCCGAg -3'
miRNA:   3'- uaUCCGCG--CUag-CCGGGCc--UCGGCUg -5'
23971 3' -62.1 NC_005262.1 + 16504 0.66 0.405789
Target:  5'- -gAGGCGCuGggCGcuGCgCUGGGGCUGACc -3'
miRNA:   3'- uaUCCGCG-CuaGC--CG-GGCCUCGGCUG- -5'
23971 3' -62.1 NC_005262.1 + 50351 0.66 0.404907
Target:  5'- --cGGCGCGggCGcGCCCucguugcGGcggucgaucucGGCCGACa -3'
miRNA:   3'- uauCCGCGCuaGC-CGGG-------CC-----------UCGGCUG- -5'
23971 3' -62.1 NC_005262.1 + 34106 0.66 0.397022
Target:  5'- --cGGCGCacGAUgCGGCCCGGcgucacGCCGuCc -3'
miRNA:   3'- uauCCGCG--CUA-GCCGGGCCu-----CGGCuG- -5'
23971 3' -62.1 NC_005262.1 + 46770 0.66 0.397022
Target:  5'- --cGGCGCuGAcugcaUCGGCgggcgUCGGuGCCGGCg -3'
miRNA:   3'- uauCCGCG-CU-----AGCCG-----GGCCuCGGCUG- -5'
23971 3' -62.1 NC_005262.1 + 30611 0.66 0.397022
Target:  5'- -aGGGCGCGAagaUCGaG-CCGccGCCGACg -3'
miRNA:   3'- uaUCCGCGCU---AGC-CgGGCcuCGGCUG- -5'
23971 3' -62.1 NC_005262.1 + 10523 0.66 0.397022
Target:  5'- ---aGCGCGGgggCGGCCgaaaCGGcuauGCCGACg -3'
miRNA:   3'- uaucCGCGCUa--GCCGG----GCCu---CGGCUG- -5'
23971 3' -62.1 NC_005262.1 + 15588 0.66 0.397022
Target:  5'- -gAGGCGCGcgCGcGCgaGGAGCgcgugCGGCa -3'
miRNA:   3'- uaUCCGCGCuaGC-CGggCCUCG-----GCUG- -5'
23971 3' -62.1 NC_005262.1 + 32709 0.66 0.397022
Target:  5'- gGUGGGCGacaucAUCGaGCUCGGcgugcugccGGCCGACc -3'
miRNA:   3'- -UAUCCGCgc---UAGC-CGGGCC---------UCGGCUG- -5'
23971 3' -62.1 NC_005262.1 + 43140 0.66 0.396152
Target:  5'- -cGGcGCGCGGUgcCGGCCgGGucgauguacucguAGCUGGCg -3'
miRNA:   3'- uaUC-CGCGCUA--GCCGGgCC-------------UCGGCUG- -5'
23971 3' -62.1 NC_005262.1 + 59008 0.66 0.388378
Target:  5'- -aAGcGCGCGccAUCGGUCgGGccGCCGGCc -3'
miRNA:   3'- uaUC-CGCGC--UAGCCGGgCCu-CGGCUG- -5'
23971 3' -62.1 NC_005262.1 + 48213 0.66 0.388378
Target:  5'- -aGGGCGCGGUCGGUggCaugcaGGucauGcCCGACa -3'
miRNA:   3'- uaUCCGCGCUAGCCG--Gg----CCu---C-GGCUG- -5'
23971 3' -62.1 NC_005262.1 + 41594 0.66 0.388378
Target:  5'- --cGGUGUGGgugUGGCCCGGAucGgUGACg -3'
miRNA:   3'- uauCCGCGCUa--GCCGGGCCU--CgGCUG- -5'
23971 3' -62.1 NC_005262.1 + 43813 0.66 0.379013
Target:  5'- -cGGGCgaucgcgGCGAcaCGGCCgCGG-GCCGGCc -3'
miRNA:   3'- uaUCCG-------CGCUa-GCCGG-GCCuCGGCUG- -5'
23971 3' -62.1 NC_005262.1 + 42237 0.66 0.371464
Target:  5'- --cGGcCGCGAcCgGGCCCGGcGCCG-Cg -3'
miRNA:   3'- uauCC-GCGCUaG-CCGGGCCuCGGCuG- -5'
23971 3' -62.1 NC_005262.1 + 11730 0.66 0.363198
Target:  5'- ---aGCGCGAcgcCGGCgCCGccGAGCCGAUg -3'
miRNA:   3'- uaucCGCGCUa--GCCG-GGC--CUCGGCUG- -5'
23971 3' -62.1 NC_005262.1 + 46398 0.67 0.35506
Target:  5'- -cAGGCGCGccucGUCGGgCUGG-GCCcGCa -3'
miRNA:   3'- uaUCCGCGC----UAGCCgGGCCuCGGcUG- -5'
23971 3' -62.1 NC_005262.1 + 43285 0.67 0.347052
Target:  5'- --cGGUGUGAUCcugaucgagGGCUCGGuGCUGAUg -3'
miRNA:   3'- uauCCGCGCUAG---------CCGGGCCuCGGCUG- -5'
23971 3' -62.1 NC_005262.1 + 42151 0.67 0.339173
Target:  5'- --cGGCGCcg--GGCCCGGucgcGGCCGAUc -3'
miRNA:   3'- uauCCGCGcuagCCGGGCC----UCGGCUG- -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.