miRNA display CGI


Results 1 - 20 of 58 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
24538 3' -64.6 NC_005264.1 + 39144 0.66 0.538747
Target:  5'- -cGGCCUGCUgugagccaccgacguCCgaauuauUGGCUGGGCGCg -3'
miRNA:   3'- guCCGGACGG---------------GGacc----GCCGACUCGCG- -5'
24538 3' -64.6 NC_005264.1 + 154569 0.66 0.534974
Target:  5'- -cGGCCUGCaaCgaGGCGGacaccaGGGCGCc -3'
miRNA:   3'- guCCGGACGg-GgaCCGCCga----CUCGCG- -5'
24538 3' -64.6 NC_005264.1 + 129911 0.66 0.529331
Target:  5'- gGGGCCguggggaauucccggUGCCCggucaUUGGuCGGCUGgauGGCGUg -3'
miRNA:   3'- gUCCGG---------------ACGGG-----GACC-GCCGAC---UCGCG- -5'
24538 3' -64.6 NC_005264.1 + 10885 0.66 0.529331
Target:  5'- gGGGCCguggggaauucccggUGCCCggucaUUGGuCGGCUGgauGGCGUg -3'
miRNA:   3'- gUCCGG---------------ACGGG-----GACC-GCCGAC---UCGCG- -5'
24538 3' -64.6 NC_005264.1 + 69858 0.66 0.525582
Target:  5'- gGGGCaucGCCCCUacGGCGGac--GCGCu -3'
miRNA:   3'- gUCCGga-CGGGGA--CCGCCgacuCGCG- -5'
24538 3' -64.6 NC_005264.1 + 19203 0.66 0.525582
Target:  5'- -cGGCUUGCCCaUGGUGuGCaggGAGCa- -3'
miRNA:   3'- guCCGGACGGGgACCGC-CGa--CUCGcg -5'
24538 3' -64.6 NC_005264.1 + 135583 0.66 0.525582
Target:  5'- aGGGCCUcUUCCUGGCuaCUagaGAGCGCa -3'
miRNA:   3'- gUCCGGAcGGGGACCGccGA---CUCGCG- -5'
24538 3' -64.6 NC_005264.1 + 159081 0.66 0.506992
Target:  5'- aGGGCCcgcagcGCCCC-GGCGGCaaGAG-GCc -3'
miRNA:   3'- gUCCGGa-----CGGGGaCCGCCGa-CUCgCG- -5'
24538 3' -64.6 NC_005264.1 + 40054 0.66 0.506992
Target:  5'- aGGGCCcgcagcGCCCC-GGCGGCaaGAG-GCc -3'
miRNA:   3'- gUCCGGa-----CGGGGaCCGCCGa-CUCgCG- -5'
24538 3' -64.6 NC_005264.1 + 160108 0.66 0.506992
Target:  5'- aAGGCCUagugacGCgCCUGGgGGC--AGUGCu -3'
miRNA:   3'- gUCCGGA------CGgGGACCgCCGacUCGCG- -5'
24538 3' -64.6 NC_005264.1 + 131710 0.66 0.506992
Target:  5'- uGGGCCUGCgC--GGCGuuGCUG-GCGCu -3'
miRNA:   3'- gUCCGGACGgGgaCCGC--CGACuCGCG- -5'
24538 3' -64.6 NC_005264.1 + 87633 0.66 0.501469
Target:  5'- aGGGCCgaugcaGCCgcguggggcgcgggaCCUGGCGGCaacGGGCaGCu -3'
miRNA:   3'- gUCCGGa-----CGG---------------GGACCGCCGa--CUCG-CG- -5'
24538 3' -64.6 NC_005264.1 + 23653 0.66 0.497801
Target:  5'- aCAGGaCCgGCa--UGGCGGUaUGGGCGCc -3'
miRNA:   3'- -GUCC-GGaCGgggACCGCCG-ACUCGCG- -5'
24538 3' -64.6 NC_005264.1 + 143461 0.66 0.488687
Target:  5'- cCAGGa-UGCCCgUGG-GGCauUGGGUGCg -3'
miRNA:   3'- -GUCCggACGGGgACCgCCG--ACUCGCG- -5'
24538 3' -64.6 NC_005264.1 + 94590 0.67 0.483255
Target:  5'- gCAGGCC-GCCCgCggcgcgggcauggcuUGGCGGUgcGGCGUg -3'
miRNA:   3'- -GUCCGGaCGGG-G---------------ACCGCCGacUCGCG- -5'
24538 3' -64.6 NC_005264.1 + 57898 0.67 0.479651
Target:  5'- gAGGCUcgGCgCUUGGCacGGCUGGGgGUu -3'
miRNA:   3'- gUCCGGa-CGgGGACCG--CCGACUCgCG- -5'
24538 3' -64.6 NC_005264.1 + 107191 0.67 0.479651
Target:  5'- gGGGCC-GCCaaaaCUaaaGGCGGCgGcGCGCg -3'
miRNA:   3'- gUCCGGaCGGg---GA---CCGCCGaCuCGCG- -5'
24538 3' -64.6 NC_005264.1 + 29456 0.67 0.47606
Target:  5'- -cGGUCgGCCCCacgcggauuggggGGCGGUgcAGCGCa -3'
miRNA:   3'- guCCGGaCGGGGa------------CCGCCGacUCGCG- -5'
24538 3' -64.6 NC_005264.1 + 114783 0.67 0.470698
Target:  5'- -cGGCCgaUGUCCCUGGCcaauGCUccauGCGCa -3'
miRNA:   3'- guCCGG--ACGGGGACCGc---CGAcu--CGCG- -5'
24538 3' -64.6 NC_005264.1 + 46598 0.67 0.469807
Target:  5'- gAGGCuCUGUCCCUGcGgGGCgagGAcggcuccGUGCa -3'
miRNA:   3'- gUCCG-GACGGGGAC-CgCCGa--CU-------CGCG- -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.