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 + 62885 0.66 0.726767
Target:  5'- cCUUCGUCGGGAUuucCGCUUuCGGcGCg -3'
miRNA:   3'- -GGAGCAGCUCUGca-GCGAGuGCCcCG- -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 + 29197 0.66 0.726767
Target:  5'- cCUUCGUgcgCGuGAUGUCGUUCuc-GGGCa -3'
miRNA:   3'- -GGAGCA---GCuCUGCAGCGAGugcCCCG- -5'
23986 3' -57.4 NC_005262.1 + 23404 0.66 0.716608
Target:  5'- gCUCGUgCGcGGCGccuugaugCGCUUgauggcgaacgACGGGGCg -3'
miRNA:   3'- gGAGCA-GCuCUGCa-------GCGAG-----------UGCCCCG- -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 + 2654 0.66 0.716608
Target:  5'- gCUCGUcucCGAGACGUU-CUCGCGGa-- -3'
miRNA:   3'- gGAGCA---GCUCUGCAGcGAGUGCCccg -5'
23986 3' -57.4 NC_005262.1 + 17102 0.66 0.706373
Target:  5'- gCCUCgGUCGAcuucagcacGACGagcgcgCGCUCGgcCGGcGGCa -3'
miRNA:   3'- -GGAG-CAGCU---------CUGCa-----GCGAGU--GCC-CCG- -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 + 11958 0.66 0.696072
Target:  5'- uUUCGcgCGAuacACGUCGCcgacaGCGGGGCc -3'
miRNA:   3'- gGAGCa-GCUc--UGCAGCGag---UGCCCCG- -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 + 8271 0.66 0.696072
Target:  5'- --gCGgcCGAGgaagcugcccGCGUCGCUCGCGaGGCg -3'
miRNA:   3'- ggaGCa-GCUC----------UGCAGCGAGUGCcCCG- -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 + 37693 0.67 0.66905
Target:  5'- gCUCGUCGuuggauacgcuaacGGCGU-GCagAUGGGGCg -3'
miRNA:   3'- gGAGCAGCu-------------CUGCAgCGagUGCCCCG- -5'
23986 3' -57.4 NC_005262.1 + 33894 0.67 0.664869
Target:  5'- uCCUCGUCcuggaGGACGUUGCcCGCGcGaGCg -3'
miRNA:   3'- -GGAGCAGc----UCUGCAGCGaGUGC-CcCG- -5'
23986 3' -57.4 NC_005262.1 + 48693 0.67 0.6544
Target:  5'- uCCUCGUCGAGcuGCGaUUGCagGCcgaGGcGGCu -3'
miRNA:   3'- -GGAGCAGCUC--UGC-AGCGagUG---CC-CCG- -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 + 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 + 54774 0.67 0.611376
Target:  5'- aCCgCGUCGAGAaucuggcCGgCGUUCAucuuCGGGGUg -3'
miRNA:   3'- -GGaGCAGCUCU-------GCaGCGAGU----GCCCCG- -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.