miRNA display CGI


Results 1 - 20 of 29 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
28134 3' -50.4 NC_005887.1 + 16198 0.66 0.92644
Target:  5'- -aAGAggccgCgcUG-CGA-CCGGACACGCa -3'
miRNA:   3'- ggUCUa----GauACaGCUaGGCCUGUGCG- -5'
28134 3' -50.4 NC_005887.1 + 36973 0.66 0.92644
Target:  5'- cUCGGcGUCgcgcggGUCGAgcucgCCGGcgaGCACGCg -3'
miRNA:   3'- -GGUC-UAGaua---CAGCUa----GGCC---UGUGCG- -5'
28134 3' -50.4 NC_005887.1 + 41236 0.66 0.924641
Target:  5'- gCGGAUC-AUGuUCGAcaccauugcggcuuUCUGG-CACGCg -3'
miRNA:   3'- gGUCUAGaUAC-AGCU--------------AGGCCuGUGCG- -5'
28134 3' -50.4 NC_005887.1 + 11992 0.66 0.920341
Target:  5'- gCAGGUCgcgcccacGUUGcagacAUCCGGcGCACGCa -3'
miRNA:   3'- gGUCUAGaua-----CAGC-----UAGGCC-UGUGCG- -5'
28134 3' -50.4 NC_005887.1 + 7655 0.66 0.920341
Target:  5'- aCCGGcgCcgcuuacgcgAUGcCG-UCCGGAUACGCc -3'
miRNA:   3'- -GGUCuaGa---------UACaGCuAGGCCUGUGCG- -5'
28134 3' -50.4 NC_005887.1 + 31368 0.66 0.920341
Target:  5'- uCCAGAUCa----UGAUCUcGACGCGCu -3'
miRNA:   3'- -GGUCUAGauacaGCUAGGcCUGUGCG- -5'
28134 3' -50.4 NC_005887.1 + 512 0.66 0.913946
Target:  5'- aCgAGuAUCUG-GUCGAUCUGaACGCGUc -3'
miRNA:   3'- -GgUC-UAGAUaCAGCUAGGCcUGUGCG- -5'
28134 3' -50.4 NC_005887.1 + 10685 0.66 0.907257
Target:  5'- cCCAGG-CUccgcgagaagcGUGUCGcgauGUUCGuGACGCGCu -3'
miRNA:   3'- -GGUCUaGA-----------UACAGC----UAGGC-CUGUGCG- -5'
28134 3' -50.4 NC_005887.1 + 42010 0.66 0.900275
Target:  5'- cCCAcGUCgaGUGUCG--CCGcGGCGCGCg -3'
miRNA:   3'- -GGUcUAGa-UACAGCuaGGC-CUGUGCG- -5'
28134 3' -50.4 NC_005887.1 + 1529 0.67 0.893006
Target:  5'- cCCGGAcCUGcUGUCGAcgaCCgcgaaGGACugGCu -3'
miRNA:   3'- -GGUCUaGAU-ACAGCUa--GG-----CCUGugCG- -5'
28134 3' -50.4 NC_005887.1 + 28999 0.67 0.893006
Target:  5'- gCCAGugcucgCUGUgcGUCGAcgcaaUGGGCGCGCg -3'
miRNA:   3'- -GGUCua----GAUA--CAGCUag---GCCUGUGCG- -5'
28134 3' -50.4 NC_005887.1 + 13190 0.67 0.885452
Target:  5'- cCCGGcacgcUCgagGUGUCGAccUUCGG-CACGCc -3'
miRNA:   3'- -GGUCu----AGa--UACAGCU--AGGCCuGUGCG- -5'
28134 3' -50.4 NC_005887.1 + 19888 0.67 0.885452
Target:  5'- gCCAG-UgUGUcGUCGAcgcccccguuUCCGGuCGCGCc -3'
miRNA:   3'- -GGUCuAgAUA-CAGCU----------AGGCCuGUGCG- -5'
28134 3' -50.4 NC_005887.1 + 24439 0.67 0.877621
Target:  5'- gCAGGUCg----CGAgcaGGACACGCa -3'
miRNA:   3'- gGUCUAGauacaGCUaggCCUGUGCG- -5'
28134 3' -50.4 NC_005887.1 + 4097 0.67 0.869518
Target:  5'- gCAGAUCggcaUCGAguUCgcgcaGGACACGCg -3'
miRNA:   3'- gGUCUAGauacAGCU--AGg----CCUGUGCG- -5'
28134 3' -50.4 NC_005887.1 + 11950 0.68 0.842752
Target:  5'- aCGGGgggcCUguaAUGUCGAUCCGGACccugucuACGa -3'
miRNA:   3'- gGUCUa---GA---UACAGCUAGGCCUG-------UGCg -5'
28134 3' -50.4 NC_005887.1 + 29946 0.68 0.842752
Target:  5'- uCgGGAUCgacgGUGUCGAgcgCCGcGAacaccgcCGCGCg -3'
miRNA:   3'- -GgUCUAGa---UACAGCUa--GGC-CU-------GUGCG- -5'
28134 3' -50.4 NC_005887.1 + 22883 0.68 0.825203
Target:  5'- aUCAGAUCcucg-CGcgCUGGugGCGCa -3'
miRNA:   3'- -GGUCUAGauacaGCuaGGCCugUGCG- -5'
28134 3' -50.4 NC_005887.1 + 3455 0.69 0.805882
Target:  5'- aCCAGAgcaUcgGUCuGUUCGGGCcugGCGCg -3'
miRNA:   3'- -GGUCUag-AuaCAGcUAGGCCUG---UGCG- -5'
28134 3' -50.4 NC_005887.1 + 42122 0.7 0.732742
Target:  5'- -aGGAcUUGUGgCGAUCCuGGCGCGCa -3'
miRNA:   3'- ggUCUaGAUACaGCUAGGcCUGUGCG- -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.