miRNA display CGI


Results 1 - 20 of 42 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
23642 3' -59.9 NC_005261.1 + 64514 0.66 0.720055
Target:  5'- gGCCCGcggGCgGCUCCUCgUcggggggcaGGUCCGGg- -3'
miRNA:   3'- -CGGGUa--CG-CGAGGAGgA---------CCAGGUCgu -5'
23642 3' -59.9 NC_005261.1 + 83594 0.66 0.720055
Target:  5'- cGCCagcaGCGCgucgCuCUCCgccgcggcgUGGUCCAGCGc -3'
miRNA:   3'- -CGGgua-CGCGa---G-GAGG---------ACCAGGUCGU- -5'
23642 3' -59.9 NC_005261.1 + 41121 0.66 0.710214
Target:  5'- gGCCCGaGCGCuUCCUgCgUGGcgcgcgCCAGCc -3'
miRNA:   3'- -CGGGUaCGCG-AGGA-GgACCa-----GGUCGu -5'
23642 3' -59.9 NC_005261.1 + 91969 0.66 0.710214
Target:  5'- aCCCG-GCGCaggCCgUCagcaggUGGUCCAGCAg -3'
miRNA:   3'- cGGGUaCGCGa--GG-AGg-----ACCAGGUCGU- -5'
23642 3' -59.9 NC_005261.1 + 43491 0.66 0.700307
Target:  5'- gGCCUucgcgGCGgaCCUCCUGcGcugcgCCAGCGc -3'
miRNA:   3'- -CGGGua---CGCgaGGAGGAC-Ca----GGUCGU- -5'
23642 3' -59.9 NC_005261.1 + 117361 0.66 0.700307
Target:  5'- cGCCCGcaagGcCGC-CCUCCUGGaggcgcgcugcUUCGGCGg -3'
miRNA:   3'- -CGGGUa---C-GCGaGGAGGACC-----------AGGUCGU- -5'
23642 3' -59.9 NC_005261.1 + 137865 0.66 0.690345
Target:  5'- cGCCCcugGUGCUCC-CggGG-CCAGCGg -3'
miRNA:   3'- -CGGGua-CGCGAGGaGgaCCaGGUCGU- -5'
23642 3' -59.9 NC_005261.1 + 182 0.66 0.690345
Target:  5'- cGCCCcugGUGCUCC-CggGG-CCAGCGg -3'
miRNA:   3'- -CGGGua-CGCGAGGaGgaCCaGGUCGU- -5'
23642 3' -59.9 NC_005261.1 + 86448 0.66 0.680335
Target:  5'- gGUCCA-GCGCgaaCUCCUGG-CCcGCGc -3'
miRNA:   3'- -CGGGUaCGCGag-GAGGACCaGGuCGU- -5'
23642 3' -59.9 NC_005261.1 + 133456 0.66 0.670286
Target:  5'- cGCCUGUGCGcCUCgCUCa---UCCAGCAg -3'
miRNA:   3'- -CGGGUACGC-GAG-GAGgaccAGGUCGU- -5'
23642 3' -59.9 NC_005261.1 + 102248 0.66 0.670286
Target:  5'- cGCCCGcUGCGCgcucgCCUCCagcgcccGGUcggccugccgcgCCAGCGg -3'
miRNA:   3'- -CGGGU-ACGCGa----GGAGGa------CCA------------GGUCGU- -5'
23642 3' -59.9 NC_005261.1 + 112707 0.67 0.660207
Target:  5'- uGCCCGUgcaggaccugGCGUUCCUCgUcGUCCgcAGCAu -3'
miRNA:   3'- -CGGGUA----------CGCGAGGAGgAcCAGG--UCGU- -5'
23642 3' -59.9 NC_005261.1 + 70732 0.67 0.650106
Target:  5'- cGUCCAgcacGUGCgCCUCCUcgagcaGGUCCAGgCGg -3'
miRNA:   3'- -CGGGUa---CGCGaGGAGGA------CCAGGUC-GU- -5'
23642 3' -59.9 NC_005261.1 + 18201 0.67 0.639991
Target:  5'- cCCCAgggccGCGCcgaUCC-CCcGGUCCAGCc -3'
miRNA:   3'- cGGGUa----CGCG---AGGaGGaCCAGGUCGu -5'
23642 3' -59.9 NC_005261.1 + 2260 0.67 0.639991
Target:  5'- gGCCgCcgGCGCUCgUCCUcgccGGgcggcgccgCCAGCGc -3'
miRNA:   3'- -CGG-GuaCGCGAGgAGGA----CCa--------GGUCGU- -5'
23642 3' -59.9 NC_005261.1 + 29278 0.67 0.619751
Target:  5'- gGCCCGcUGCugacgccCUCCggcgaggCCUGGcCCGGCAg -3'
miRNA:   3'- -CGGGU-ACGc------GAGGa------GGACCaGGUCGU- -5'
23642 3' -59.9 NC_005261.1 + 86008 0.67 0.609641
Target:  5'- gGCgUCGUGCGCcagcagCCgcugCUGGUCCAGCu -3'
miRNA:   3'- -CG-GGUACGCGa-----GGag--GACCAGGUCGu -5'
23642 3' -59.9 NC_005261.1 + 102406 0.67 0.609641
Target:  5'- cGCgCCA-GCGCUCCUCCUGccgcugCgCGGCc -3'
miRNA:   3'- -CG-GGUaCGCGAGGAGGACca----G-GUCGu -5'
23642 3' -59.9 NC_005261.1 + 30299 0.68 0.599547
Target:  5'- gGCCCGcGCGCUCUUCagcccgCCGGCGg -3'
miRNA:   3'- -CGGGUaCGCGAGGAGgacca-GGUCGU- -5'
23642 3' -59.9 NC_005261.1 + 91501 0.68 0.589477
Target:  5'- cGCCCGccccGCGCgCCUgCUGGUCuCGGaCAu -3'
miRNA:   3'- -CGGGUa---CGCGaGGAgGACCAG-GUC-GU- -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.