miRNA display CGI


Results 1 - 20 of 24 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
23991 3' -56.2 NC_005262.1 + 25732 0.66 0.691571
Target:  5'- gGCCGAG-GCGaucgcGCAGGCCGgCAAg -3'
miRNA:   3'- gUGGCUCaUGCacuu-CGUCCGGC-GUU- -5'
23991 3' -56.2 NC_005262.1 + 15597 0.66 0.680699
Target:  5'- gCGCgCGAGgagcGCGUGcGGCAGGagCGCAu -3'
miRNA:   3'- -GUG-GCUCa---UGCACuUCGUCCg-GCGUu -5'
23991 3' -56.2 NC_005262.1 + 52898 0.66 0.669781
Target:  5'- uCGCCGAGcgccugccacUGCGaauccuUGAAGC-GGCCGUAGc -3'
miRNA:   3'- -GUGGCUC----------AUGC------ACUUCGuCCGGCGUU- -5'
23991 3' -56.2 NC_005262.1 + 22199 0.66 0.658827
Target:  5'- uGCCGGccACGUGcAGCAGGUCGaCGu -3'
miRNA:   3'- gUGGCUcaUGCACuUCGUCCGGC-GUu -5'
23991 3' -56.2 NC_005262.1 + 13003 0.66 0.658827
Target:  5'- gCGCCGcgcaGGUuguCGUGuccAGCAGGCCGgGg -3'
miRNA:   3'- -GUGGC----UCAu--GCACu--UCGUCCGGCgUu -5'
23991 3' -56.2 NC_005262.1 + 768 0.66 0.658827
Target:  5'- uCGCCGAGgugACGUGc-GCGGaCUGCAAg -3'
miRNA:   3'- -GUGGCUCa--UGCACuuCGUCcGGCGUU- -5'
23991 3' -56.2 NC_005262.1 + 23356 0.66 0.636856
Target:  5'- gGCCG---GCGUGAAGCGcgcGGCgGCGAa -3'
miRNA:   3'- gUGGCucaUGCACUUCGU---CCGgCGUU- -5'
23991 3' -56.2 NC_005262.1 + 17930 0.67 0.625859
Target:  5'- gCGCCGAcgccaACGgcGAGCAGGUCGCGAu -3'
miRNA:   3'- -GUGGCUca---UGCacUUCGUCCGGCGUU- -5'
23991 3' -56.2 NC_005262.1 + 17074 0.67 0.625859
Target:  5'- gCGCCGAuagGCGcgcccgucGAcgcGGCGGGCCGCGAg -3'
miRNA:   3'- -GUGGCUca-UGCa-------CU---UCGUCCGGCGUU- -5'
23991 3' -56.2 NC_005262.1 + 14171 0.67 0.614867
Target:  5'- gCGCCGAGga-GUGcGGCAaGCCGCu- -3'
miRNA:   3'- -GUGGCUCaugCACuUCGUcCGGCGuu -5'
23991 3' -56.2 NC_005262.1 + 45300 0.67 0.608279
Target:  5'- gGCCGAGcccgGCG-GAcaugccgccugcgagGGCAGGCCGUu- -3'
miRNA:   3'- gUGGCUCa---UGCaCU---------------UCGUCCGGCGuu -5'
23991 3' -56.2 NC_005262.1 + 3834 0.67 0.603891
Target:  5'- uGCCGAGcgccccgcGCGUGAcgugccgcugauGGUAGGCCGaCAGu -3'
miRNA:   3'- gUGGCUCa-------UGCACU------------UCGUCCGGC-GUU- -5'
23991 3' -56.2 NC_005262.1 + 4723 0.67 0.592938
Target:  5'- --gCGGGUugGUG-AGCAGGCgGUg- -3'
miRNA:   3'- gugGCUCAugCACuUCGUCCGgCGuu -5'
23991 3' -56.2 NC_005262.1 + 48428 0.67 0.571142
Target:  5'- gCGCCGGGUcgguCGUGccGAGCuucuucuGGCCGUAGg -3'
miRNA:   3'- -GUGGCUCAu---GCAC--UUCGu------CCGGCGUU- -5'
23991 3' -56.2 NC_005262.1 + 22322 0.67 0.571142
Target:  5'- gGCCGGccgGCGUGGgcGGCGcGGCCGUGAg -3'
miRNA:   3'- gUGGCUca-UGCACU--UCGU-CCGGCGUU- -5'
23991 3' -56.2 NC_005262.1 + 32008 0.68 0.560314
Target:  5'- uCAUCGAGaaggcCGUGGAaaAGGCCGCGAu -3'
miRNA:   3'- -GUGGCUCau---GCACUUcgUCCGGCGUU- -5'
23991 3' -56.2 NC_005262.1 + 34007 0.68 0.538838
Target:  5'- gCGCgGAcgGCGUGAcGcCGGGCCGCAu -3'
miRNA:   3'- -GUGgCUcaUGCACUuC-GUCCGGCGUu -5'
23991 3' -56.2 NC_005262.1 + 44969 0.69 0.50718
Target:  5'- cCGCCGAGgcgagggccgACGUGcAGCAGuCCGCGc -3'
miRNA:   3'- -GUGGCUCa---------UGCACuUCGUCcGGCGUu -5'
23991 3' -56.2 NC_005262.1 + 51835 0.69 0.47634
Target:  5'- gGCCGAcGUGCGcgaagugcUGAAGCgcGGcGCCGCGAa -3'
miRNA:   3'- gUGGCU-CAUGC--------ACUUCG--UC-CGGCGUU- -5'
23991 3' -56.2 NC_005262.1 + 55345 0.7 0.436734
Target:  5'- aCGCCGAGUGCGUGAugauGaCCGCAu -3'
miRNA:   3'- -GUGGCUCAUGCACUucguCcGGCGUu -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.