miRNA display CGI


Results 1 - 20 of 38 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
16294 3' -52.4 NC_004084.1 + 12782 0.66 0.891629
Target:  5'- aUCCGAgacgccGUCGAcgaccgacAGGUUGUCagCCGGGACg -3'
miRNA:   3'- cAGGUU------CAGCU--------UCUAGCAG--GGCUCUG- -5'
16294 3' -52.4 NC_004084.1 + 19619 0.66 0.884198
Target:  5'- --aCGAGUCGggGAgcgaGUUCCGGcucGACg -3'
miRNA:   3'- cagGUUCAGCuuCUag--CAGGGCU---CUG- -5'
16294 3' -52.4 NC_004084.1 + 18217 0.66 0.88344
Target:  5'- cGUCCAGcUCGAggugaacgAGGUCGccggaguuggccaUCCCGAuGACg -3'
miRNA:   3'- -CAGGUUcAGCU--------UCUAGC-------------AGGGCU-CUG- -5'
16294 3' -52.4 NC_004084.1 + 3902 0.66 0.879613
Target:  5'- cGUCCAGgugccgguuguagucGUCGAAGG-CGUCCuCGAaccGGCu -3'
miRNA:   3'- -CAGGUU---------------CAGCUUCUaGCAGG-GCU---CUG- -5'
16294 3' -52.4 NC_004084.1 + 18112 0.66 0.868549
Target:  5'- gGUCgAGGUCGggGAuguccggcUCGgCCCG-GAUg -3'
miRNA:   3'- -CAGgUUCAGCuuCU--------AGCaGGGCuCUG- -5'
16294 3' -52.4 NC_004084.1 + 56737 0.66 0.868549
Target:  5'- cGUCCuucgcGUCGAucAGGUCG-CCCGAcGAg -3'
miRNA:   3'- -CAGGuu---CAGCU--UCUAGCaGGGCU-CUg -5'
16294 3' -52.4 NC_004084.1 + 28776 0.66 0.868549
Target:  5'- uGUCCGcgcGGUCGucGA-CGUCCgGAGcCg -3'
miRNA:   3'- -CAGGU---UCAGCuuCUaGCAGGgCUCuG- -5'
16294 3' -52.4 NC_004084.1 + 49284 0.66 0.860343
Target:  5'- -gCgAAGUCGAAGG-CGUUCCG-GAUg -3'
miRNA:   3'- caGgUUCAGCUUCUaGCAGGGCuCUG- -5'
16294 3' -52.4 NC_004084.1 + 23530 0.66 0.860343
Target:  5'- -aCCAGGgaUCGAAGAUC-UCCCGccACa -3'
miRNA:   3'- caGGUUC--AGCUUCUAGcAGGGCucUG- -5'
16294 3' -52.4 NC_004084.1 + 19299 0.66 0.860343
Target:  5'- cGUCCGAGUUGAAGAg-GUCgaCGAcgaucGACg -3'
miRNA:   3'- -CAGGUUCAGCUUCUagCAGg-GCU-----CUG- -5'
16294 3' -52.4 NC_004084.1 + 35250 0.66 0.851893
Target:  5'- uUCCA---CGAAGAacucCGUCCCGAGGg -3'
miRNA:   3'- cAGGUucaGCUUCUa---GCAGGGCUCUg -5'
16294 3' -52.4 NC_004084.1 + 14917 0.67 0.844086
Target:  5'- cUCCGgguucgccucgaucuGGUCGAAGAuccggugaagaugcUCGUC-CGGGACa -3'
miRNA:   3'- cAGGU---------------UCAGCUUCU--------------AGCAGgGCUCUG- -5'
16294 3' -52.4 NC_004084.1 + 21927 0.67 0.843207
Target:  5'- aGUUCGAcGUCGAGGAaauugucggCGUCCgGAcGACg -3'
miRNA:   3'- -CAGGUU-CAGCUUCUa--------GCAGGgCU-CUG- -5'
16294 3' -52.4 NC_004084.1 + 53053 0.67 0.843207
Target:  5'- gGUUCGAcGUCG-AGAUCGUCCCa---- -3'
miRNA:   3'- -CAGGUU-CAGCuUCUAGCAGGGcucug -5'
16294 3' -52.4 NC_004084.1 + 26947 0.67 0.828839
Target:  5'- -aCCAGGUCGAAGcgaugcgugcugcCGUCCuCGAGGg -3'
miRNA:   3'- caGGUUCAGCUUCua-----------GCAGG-GCUCUg -5'
16294 3' -52.4 NC_004084.1 + 8815 0.67 0.825161
Target:  5'- cGUCCAGGUggUGGAGcgUGUCgCCGAcACa -3'
miRNA:   3'- -CAGGUUCA--GCUUCuaGCAG-GGCUcUG- -5'
16294 3' -52.4 NC_004084.1 + 50033 0.67 0.824236
Target:  5'- aUCCGacgaaAGUCGAAGAugcUCGUCCCucaccggGuGGCg -3'
miRNA:   3'- cAGGU-----UCAGCUUCU---AGCAGGG-------CuCUG- -5'
16294 3' -52.4 NC_004084.1 + 1704 0.67 0.82238
Target:  5'- cGUCCGAGUCccagcgGAGGAuggcggcugcucgaUCGgugaCCGAGACc -3'
miRNA:   3'- -CAGGUUCAG------CUUCU--------------AGCag--GGCUCUG- -5'
16294 3' -52.4 NC_004084.1 + 57609 0.67 0.806283
Target:  5'- --aCGGGUUGAGGAguucgcgcuUCGUCUCGAGGu -3'
miRNA:   3'- cagGUUCAGCUUCU---------AGCAGGGCUCUg -5'
16294 3' -52.4 NC_004084.1 + 16678 0.67 0.806283
Target:  5'- -gCCGGcGUCGucccGAUCGUCauCCGGGACg -3'
miRNA:   3'- caGGUU-CAGCuu--CUAGCAG--GGCUCUG- -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.