miRNA display CGI


Results 1 - 20 of 97 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
23931 3' -59.7 NC_005262.1 + 11088 0.66 0.518967
Target:  5'- gCGCGGCCuCGuCCGG-CGuCGGCCGg- -3'
miRNA:   3'- aGCGUUGGcGC-GGUCaGU-GCCGGCaa -5'
23931 3' -59.7 NC_005262.1 + 40349 0.67 0.459374
Target:  5'- cCGCGcaUGCGCCAGUCgucggACGGCuCGa- -3'
miRNA:   3'- aGCGUugGCGCGGUCAG-----UGCCG-GCaa -5'
23931 3' -59.7 NC_005262.1 + 46708 0.67 0.459374
Target:  5'- cUCGCGGCC-CGCCGcGUCgACGGgCGc- -3'
miRNA:   3'- -AGCGUUGGcGCGGU-CAG-UGCCgGCaa -5'
23931 3' -59.7 NC_005262.1 + 26979 1.06 0.000698
Target:  5'- gUCGCAACCGCGCCAGUCACGGCCGUUg -3'
miRNA:   3'- -AGCGUUGGCGCGGUCAGUGCCGGCAA- -5'
23931 3' -59.7 NC_005262.1 + 41421 0.66 0.498731
Target:  5'- aUCGCGAuCCGCGCCGGaCACccuCCGc- -3'
miRNA:   3'- -AGCGUU-GGCGCGGUCaGUGcc-GGCaa -5'
23931 3' -59.7 NC_005262.1 + 46096 0.66 0.498731
Target:  5'- cUCGU--UCGgGCCAGcgacCACGGCCGg- -3'
miRNA:   3'- -AGCGuuGGCgCGGUCa---GUGCCGGCaa -5'
23931 3' -59.7 NC_005262.1 + 13863 0.66 0.498731
Target:  5'- aCGCcauCCGgGCCGGUCGucaGGCgGUa -3'
miRNA:   3'- aGCGuu-GGCgCGGUCAGUg--CCGgCAa -5'
23931 3' -59.7 NC_005262.1 + 757 0.66 0.497728
Target:  5'- gCGCAugCuggacuuGCGCCAGUUGCcgauGCCGUa -3'
miRNA:   3'- aGCGUugG-------CGCGGUCAGUGc---CGGCAa -5'
23931 3' -59.7 NC_005262.1 + 52028 0.66 0.485767
Target:  5'- gCGCGcccaggucggGCCGCGCCAGuuguucgaggaagaUCGCGaaGCCGa- -3'
miRNA:   3'- aGCGU----------UGGCGCGGUC--------------AGUGC--CGGCaa -5'
23931 3' -59.7 NC_005262.1 + 51620 0.67 0.459374
Target:  5'- uUUGCuccuGCCGCGCagaCAG-CGCGGCCu-- -3'
miRNA:   3'- -AGCGu---UGGCGCG---GUCaGUGCCGGcaa -5'
23931 3' -59.7 NC_005262.1 + 12271 0.66 0.478854
Target:  5'- gUCGCcguGuuGCGCaCGGUCgucucgccguuGCGGCCGa- -3'
miRNA:   3'- -AGCGu--UggCGCG-GUCAG-----------UGCCGGCaa -5'
23931 3' -59.7 NC_005262.1 + 28234 0.66 0.488745
Target:  5'- uUCGCGcucuuucCCGCGCCGGcgagcgacaUCGCGGCUu-- -3'
miRNA:   3'- -AGCGUu------GGCGCGGUC---------AGUGCCGGcaa -5'
23931 3' -59.7 NC_005262.1 + 6082 0.66 0.508807
Target:  5'- aUGCGGCgCGCGUC-GUgGCGGCCu-- -3'
miRNA:   3'- aGCGUUG-GCGCGGuCAgUGCCGGcaa -5'
23931 3' -59.7 NC_005262.1 + 53600 0.66 0.478854
Target:  5'- uUCGCAACCGCGUCGccgCuCGGCagGUa -3'
miRNA:   3'- -AGCGUUGGCGCGGUca-GuGCCGg-CAa -5'
23931 3' -59.7 NC_005262.1 + 30272 0.66 0.508807
Target:  5'- gUCGCGAUCGC-CUcGUCGuccaGGCCGUUc -3'
miRNA:   3'- -AGCGUUGGCGcGGuCAGUg---CCGGCAA- -5'
23931 3' -59.7 NC_005262.1 + 57464 0.66 0.488745
Target:  5'- cCGCGACUacaagcggcggGCGCCgacgAGagGCGGCCGg- -3'
miRNA:   3'- aGCGUUGG-----------CGCGG----UCagUGCCGGCaa -5'
23931 3' -59.7 NC_005262.1 + 2015 0.66 0.478854
Target:  5'- -gGCGAaaaCGCGCUGGUCGguCGGCgCGUg -3'
miRNA:   3'- agCGUUg--GCGCGGUCAGU--GCCG-GCAa -5'
23931 3' -59.7 NC_005262.1 + 3294 0.67 0.459374
Target:  5'- -gGCGGCCuGCGCCg--CGCGGCCc-- -3'
miRNA:   3'- agCGUUGG-CGCGGucaGUGCCGGcaa -5'
23931 3' -59.7 NC_005262.1 + 9241 0.66 0.498731
Target:  5'- cUCGCGAaCGCGgCGacGUCGCuGGCCGg- -3'
miRNA:   3'- -AGCGUUgGCGCgGU--CAGUG-CCGGCaa -5'
23931 3' -59.7 NC_005262.1 + 23152 0.66 0.498731
Target:  5'- gUCGCugacGCCGUGCCcguGGcCGgGGUCGUUg -3'
miRNA:   3'- -AGCGu---UGGCGCGG---UCaGUgCCGGCAA- -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.