miRNA display CGI


Results 1 - 20 of 20 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
30754 3' -58.8 NC_006552.1 + 33135 0.66 0.559458
Target:  5'- cCGuuGGCCAGcuUGuccGCCAGCcaGGACu -3'
miRNA:   3'- -GCggCCGGUCc-ACu--UGGUCGuaCCUG- -5'
30754 3' -58.8 NC_006552.1 + 35626 0.66 0.558407
Target:  5'- aGUCGGCgucCGGGUGGGCCucGUagaucgcauucagGUGGGCg -3'
miRNA:   3'- gCGGCCG---GUCCACUUGGu-CG-------------UACCUG- -5'
30754 3' -58.8 NC_006552.1 + 32460 0.66 0.556306
Target:  5'- gGUCGGCCAGcGUcauaccgcgccaccGAACUGgucgaugcgcGCGUGGACg -3'
miRNA:   3'- gCGGCCGGUC-CA--------------CUUGGU----------CGUACCUG- -5'
30754 3' -58.8 NC_006552.1 + 32844 0.66 0.550017
Target:  5'- cCGCgGGCCGauguacuugauGGgcacgccguuauCCAGCAUGGGCa -3'
miRNA:   3'- -GCGgCCGGU-----------CCacuu--------GGUCGUACCUG- -5'
30754 3' -58.8 NC_006552.1 + 30499 0.67 0.517907
Target:  5'- uCGCCG---AGGUGAACUGGUAggGGACa -3'
miRNA:   3'- -GCGGCcggUCCACUUGGUCGUa-CCUG- -5'
30754 3' -58.8 NC_006552.1 + 6310 0.67 0.487566
Target:  5'- aCGCUGGCCGGcUGGaaGCCG--AUGGACu -3'
miRNA:   3'- -GCGGCCGGUCcACU--UGGUcgUACCUG- -5'
30754 3' -58.8 NC_006552.1 + 11794 0.67 0.476651
Target:  5'- aGUCGGCgaacuggucaccgCGGGUGAAgCGGCugacGGACa -3'
miRNA:   3'- gCGGCCG-------------GUCCACUUgGUCGua--CCUG- -5'
30754 3' -58.8 NC_006552.1 + 58623 0.68 0.448477
Target:  5'- gGCCGcGCCGGGcagacUGAACC-GCGaccGGGCg -3'
miRNA:   3'- gCGGC-CGGUCC-----ACUUGGuCGUa--CCUG- -5'
30754 3' -58.8 NC_006552.1 + 59509 0.68 0.411185
Target:  5'- uGCCGGgaCAcGGUucuuGAGCCGGCAUguggGGACg -3'
miRNA:   3'- gCGGCCg-GU-CCA----CUUGGUCGUA----CCUG- -5'
30754 3' -58.8 NC_006552.1 + 59679 0.69 0.396816
Target:  5'- uCGCCGGCCAacggcGGUGAucggcaauccgcccuACCAGgc-GGACc -3'
miRNA:   3'- -GCGGCCGGU-----CCACU---------------UGGUCguaCCUG- -5'
30754 3' -58.8 NC_006552.1 + 63927 0.69 0.367376
Target:  5'- uGCUGGCCAGuuccuUGAAgCGGCAUgccccGGACa -3'
miRNA:   3'- gCGGCCGGUCc----ACUUgGUCGUA-----CCUG- -5'
30754 3' -58.8 NC_006552.1 + 45006 0.7 0.342675
Target:  5'- uGCuCGGCCAGGgccuGCuCAGCGgcGGACa -3'
miRNA:   3'- gCG-GCCGGUCCacu-UG-GUCGUa-CCUG- -5'
30754 3' -58.8 NC_006552.1 + 32701 0.7 0.31164
Target:  5'- uCGCCGGCCGGcGcgGGGCCGGU--GGAg -3'
miRNA:   3'- -GCGGCCGGUC-Ca-CUUGGUCGuaCCUg -5'
30754 3' -58.8 NC_006552.1 + 7233 0.71 0.301294
Target:  5'- cCGCgGGCCugcgccaucaacuGGUGGACCuccuGCggGGACa -3'
miRNA:   3'- -GCGgCCGGu------------CCACUUGGu---CGuaCCUG- -5'
30754 3' -58.8 NC_006552.1 + 33213 0.71 0.28909
Target:  5'- aCGCCGGCCAGGau-GCCGcgcuGCAUgucuuccGGGCa -3'
miRNA:   3'- -GCGGCCGGUCCacuUGGU----CGUA-------CCUG- -5'
30754 3' -58.8 NC_006552.1 + 28931 0.71 0.275913
Target:  5'- gGCCGGCUcggcaAGGUGAGCCAGUuguuGAUc -3'
miRNA:   3'- gCGGCCGG-----UCCACUUGGUCGuac-CUG- -5'
30754 3' -58.8 NC_006552.1 + 5599 0.72 0.241697
Target:  5'- aGCCGGCCAGGcUGAcggucagcgcggcaACCAGCAcgcGGuuACg -3'
miRNA:   3'- gCGGCCGGUCC-ACU--------------UGGUCGUa--CC--UG- -5'
30754 3' -58.8 NC_006552.1 + 53593 0.75 0.16944
Target:  5'- gCGCCGGCCAguucGGUGccGCCGGCugagGUGGAg -3'
miRNA:   3'- -GCGGCCGGU----CCACu-UGGUCG----UACCUg -5'
30754 3' -58.8 NC_006552.1 + 26192 0.8 0.072514
Target:  5'- gCGCCaguaGGCCAGGUGcuuGCCggucGGCAUGGGCg -3'
miRNA:   3'- -GCGG----CCGGUCCACu--UGG----UCGUACCUG- -5'
30754 3' -58.8 NC_006552.1 + 34759 1.09 0.000518
Target:  5'- gCGCCGGCCAGGUGAACCAGCAUGGACu -3'
miRNA:   3'- -GCGGCCGGUCCACUUGGUCGUACCUG- -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.