miRNA display CGI


Results 1 - 20 of 40 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
23986 3' -57.4 NC_005262.1 + 12456 1.13 0.000506
Target:  5'- uCCUCGUCGAGACGUCGCUCACGGGGCg -3'
miRNA:   3'- -GGAGCAGCUCUGCAGCGAGUGCCCCG- -5'
23986 3' -57.4 NC_005262.1 + 2922 0.67 0.653352
Target:  5'- aUCUgGUCGGcgcaguaguguguGAuCGcUCGCUCuAUGGGGCg -3'
miRNA:   3'- -GGAgCAGCU-------------CU-GC-AGCGAG-UGCCCCG- -5'
23986 3' -57.4 NC_005262.1 + 37693 0.67 0.66905
Target:  5'- gCUCGUCGuuggauacgcuaacGGCGU-GCagAUGGGGCg -3'
miRNA:   3'- gGAGCAGCu-------------CUGCAgCGagUGCCCCG- -5'
23986 3' -57.4 NC_005262.1 + 46405 0.66 0.675311
Target:  5'- gCCUCGUCGGGcUGggccCGCaaggucCGCaGGGGCc -3'
miRNA:   3'- -GGAGCAGCUCuGCa---GCGa-----GUG-CCCCG- -5'
23986 3' -57.4 NC_005262.1 + 8271 0.66 0.696072
Target:  5'- --gCGgcCGAGgaagcugcccGCGUCGCUCGCGaGGCg -3'
miRNA:   3'- ggaGCa-GCUC----------UGCAGCGAGUGCcCCG- -5'
23986 3' -57.4 NC_005262.1 + 19782 0.66 0.696072
Target:  5'- aUCUCGUgCGcGugGUCGUcgCACaucGGGCg -3'
miRNA:   3'- -GGAGCA-GCuCugCAGCGa-GUGc--CCCG- -5'
23986 3' -57.4 NC_005262.1 + 35538 0.66 0.706373
Target:  5'- gCUUCGgccaagcCGcGAUGUCGCUCGCcGGcGCg -3'
miRNA:   3'- -GGAGCa------GCuCUGCAGCGAGUGcCC-CG- -5'
23986 3' -57.4 NC_005262.1 + 17548 0.66 0.716608
Target:  5'- -gUCGcgcgCGAGGCGgcaGC-CGCGGcGGCg -3'
miRNA:   3'- ggAGCa---GCUCUGCag-CGaGUGCC-CCG- -5'
23986 3' -57.4 NC_005262.1 + 25089 0.66 0.726767
Target:  5'- cCCUUGaacaCGAcGACGcgcCGCUCACGGaGGa -3'
miRNA:   3'- -GGAGCa---GCU-CUGCa--GCGAGUGCC-CCg -5'
23986 3' -57.4 NC_005262.1 + 42916 0.67 0.643912
Target:  5'- gCUCGUCGucGCGUCGUcgUC-CGGcGCg -3'
miRNA:   3'- gGAGCAGCucUGCAGCG--AGuGCCcCG- -5'
23986 3' -57.4 NC_005262.1 + 34874 0.67 0.633415
Target:  5'- aUCUCGU-GGGGCG-CGCUCGCGa-GCa -3'
miRNA:   3'- -GGAGCAgCUCUGCaGCGAGUGCccCG- -5'
23986 3' -57.4 NC_005262.1 + 16497 0.67 0.622916
Target:  5'- gCUgGgCGAGGCGcugggCGCUgCGCuGGGGCu -3'
miRNA:   3'- gGAgCaGCUCUGCa----GCGA-GUG-CCCCG- -5'
23986 3' -57.4 NC_005262.1 + 54471 0.77 0.183684
Target:  5'- --aCGUCGAGGCGcUGCUCGCGGuGCa -3'
miRNA:   3'- ggaGCAGCUCUGCaGCGAGUGCCcCG- -5'
23986 3' -57.4 NC_005262.1 + 54396 0.72 0.339173
Target:  5'- aCCU-GUCGGGcaACGUCgugcgcaaGCUCGCGGaGGCg -3'
miRNA:   3'- -GGAgCAGCUC--UGCAG--------CGAGUGCC-CCG- -5'
23986 3' -57.4 NC_005262.1 + 41109 0.72 0.371464
Target:  5'- gCCaCGUCGAGAuCGUgCGCgUCACGGcGCg -3'
miRNA:   3'- -GGaGCAGCUCU-GCA-GCG-AGUGCCcCG- -5'
23986 3' -57.4 NC_005262.1 + 25533 0.71 0.405789
Target:  5'- uCCgCGUCGcGACGUcCGUgCGCGGcGGCa -3'
miRNA:   3'- -GGaGCAGCuCUGCA-GCGaGUGCC-CCG- -5'
23986 3' -57.4 NC_005262.1 + 5169 0.68 0.550072
Target:  5'- -aUCGgugaCGGccGGCGUCGCgggCGCGGGcGCg -3'
miRNA:   3'- ggAGCa---GCU--CUGCAGCGa--GUGCCC-CG- -5'
23986 3' -57.4 NC_005262.1 + 11334 0.68 0.560356
Target:  5'- cCCUCcUCcgcaAGACGcCGCUCGCGcGcGGCa -3'
miRNA:   3'- -GGAGcAGc---UCUGCaGCGAGUGC-C-CCG- -5'
23986 3' -57.4 NC_005262.1 + 5281 0.68 0.570693
Target:  5'- gCCUCGUUGucGugGUCGaUCACGcGGUc -3'
miRNA:   3'- -GGAGCAGCu-CugCAGCgAGUGCcCCG- -5'
23986 3' -57.4 NC_005262.1 + 61283 0.68 0.601949
Target:  5'- aCUCGaUCGGcGCGgccaGcCUCGCGGGGUc -3'
miRNA:   3'- gGAGC-AGCUcUGCag--C-GAGUGCCCCG- -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.