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 + 54471 0.77 0.183684
Target:  5'- --aCGUCGAGGCGcUGCUCGCGGuGCa -3'
miRNA:   3'- ggaGCAGCUCUGCaGCGAGUGCCcCG- -5'
23986 3' -57.4 NC_005262.1 + 46645 0.75 0.230792
Target:  5'- -gUCGUCGuGGGCGUCGCgggaGCGGcGGCc -3'
miRNA:   3'- ggAGCAGC-UCUGCAGCGag--UGCC-CCG- -5'
23986 3' -57.4 NC_005262.1 + 56461 0.74 0.28769
Target:  5'- uCCUUGUUGucGCGcaugaacgcgaUCuGCUCGCGGGGCa -3'
miRNA:   3'- -GGAGCAGCucUGC-----------AG-CGAGUGCCCCG- -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 + 32848 0.72 0.371464
Target:  5'- gCUUGUCGGcGaucagcaccGCGUCGCUCACGGaguggucggccGGCa -3'
miRNA:   3'- gGAGCAGCU-C---------UGCAGCGAGUGCC-----------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 + 48151 0.71 0.40933
Target:  5'- gCUCGUCGcggcaggugcgaccGACG-CGCUUGCGGGcGCg -3'
miRNA:   3'- gGAGCAGCu-------------CUGCaGCGAGUGCCC-CG- -5'
23986 3' -57.4 NC_005262.1 + 27652 0.7 0.460841
Target:  5'- uUCUCGcgcugCGcGGCGUC-CUCGcCGGGGCu -3'
miRNA:   3'- -GGAGCa----GCuCUGCAGcGAGU-GCCCCG- -5'
23986 3' -57.4 NC_005262.1 + 27613 0.7 0.470398
Target:  5'- cCCUCGUCGGuGCG-CGCgggCACGagcuGGGUg -3'
miRNA:   3'- -GGAGCAGCUcUGCaGCGa--GUGC----CCCG- -5'
23986 3' -57.4 NC_005262.1 + 32918 0.69 0.499653
Target:  5'- aCCUUGUCGccGACGUCGCcggaCAUGaGGCc -3'
miRNA:   3'- -GGAGCAGCu-CUGCAGCGa---GUGCcCCG- -5'
23986 3' -57.4 NC_005262.1 + 51955 0.69 0.519597
Target:  5'- gCUCgGUCGuGcucGCGUCGUUCGCGGcGCc -3'
miRNA:   3'- gGAG-CAGCuC---UGCAGCGAGUGCCcCG- -5'
23986 3' -57.4 NC_005262.1 + 58547 0.68 0.549047
Target:  5'- uCCgaCGUCGuGACGcCGCgCAcgccugcCGGGGCg -3'
miRNA:   3'- -GGa-GCAGCuCUGCaGCGaGU-------GCCCCG- -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 + 48971 0.68 0.581076
Target:  5'- cCCUUGcCGGucacGACGUCGgacaguugCGCGGGGUg -3'
miRNA:   3'- -GGAGCaGCU----CUGCAGCga------GUGCCCCG- -5'
23986 3' -57.4 NC_005262.1 + 54307 0.68 0.591497
Target:  5'- gUUCGUCGucuuGAUcUCcgGCUCGCGcGGGCg -3'
miRNA:   3'- gGAGCAGCu---CUGcAG--CGAGUGC-CCCG- -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.