miRNA display CGI


Results 1 - 20 of 46 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
11615 3' -57.2 NC_003085.1 + 49337 0.67 0.558508
Target:  5'- ---cGUCC-CGCCcucuccccacauugGGGGcCCGCCGCCc -3'
miRNA:   3'- gcuuCAGGaGCGG--------------CCUCaGGUGGUGG- -5'
11615 3' -57.2 NC_003085.1 + 48319 0.69 0.439971
Target:  5'- -cGAGU-CUCGgCGGAGUCCcCCAgCCg -3'
miRNA:   3'- gcUUCAgGAGCgGCCUCAGGuGGU-GG- -5'
11615 3' -57.2 NC_003085.1 + 46759 1.12 0.000447
Target:  5'- cCGAAGUCCUCGCCGGAGUCCACCACCu -3'
miRNA:   3'- -GCUUCAGGAGCGGCCUCAGGUGGUGG- -5'
11615 3' -57.2 NC_003085.1 + 46666 0.72 0.310672
Target:  5'- cCGAGGcgCUUCGCCgccgccuGGAGcgCCGCCGCUg -3'
miRNA:   3'- -GCUUCa-GGAGCGG-------CCUCa-GGUGGUGG- -5'
11615 3' -57.2 NC_003085.1 + 46436 0.69 0.411898
Target:  5'- uGGAGUaguggaCCUCGaagucgagcacCCaGAGUCCAUCACCa -3'
miRNA:   3'- gCUUCA------GGAGC-----------GGcCUCAGGUGGUGG- -5'
11615 3' -57.2 NC_003085.1 + 45799 0.7 0.402789
Target:  5'- uCGAGGUcaaCCUCGUCGuGccacuccGUCUGCCACCg -3'
miRNA:   3'- -GCUUCA---GGAGCGGC-Cu------CAGGUGGUGG- -5'
11615 3' -57.2 NC_003085.1 + 45059 0.66 0.615323
Target:  5'- ----cUCCUcCGCCGGcuGUCCGguauCCGCCg -3'
miRNA:   3'- gcuucAGGA-GCGGCCu-CAGGU----GGUGG- -5'
11615 3' -57.2 NC_003085.1 + 42900 0.74 0.207998
Target:  5'- cCGAGGUCCUgCGCgUGGAuUCCACCguugACCg -3'
miRNA:   3'- -GCUUCAGGA-GCG-GCCUcAGGUGG----UGG- -5'
11615 3' -57.2 NC_003085.1 + 42693 0.67 0.57234
Target:  5'- gGAAGggcUCUCGCCG---UCCGCCACg -3'
miRNA:   3'- gCUUCa--GGAGCGGCcucAGGUGGUGg -5'
11615 3' -57.2 NC_003085.1 + 42479 0.68 0.503267
Target:  5'- aGGAGUCCgaagCgGCCGGAG-CCaacggagagggcaucGCUGCCg -3'
miRNA:   3'- gCUUCAGGa---G-CGGCCUCaGG---------------UGGUGG- -5'
11615 3' -57.2 NC_003085.1 + 41947 0.73 0.23669
Target:  5'- ---cGUCCUCGUCGGugauGUCCugCaACCg -3'
miRNA:   3'- gcuuCAGGAGCGGCCu---CAGGugG-UGG- -5'
11615 3' -57.2 NC_003085.1 + 41845 0.67 0.530105
Target:  5'- -uGAGUCC-CGcCCGGcgcuGGUCCACCucgcggugcGCCg -3'
miRNA:   3'- gcUUCAGGaGC-GGCC----UCAGGUGG---------UGG- -5'
11615 3' -57.2 NC_003085.1 + 40471 0.67 0.551099
Target:  5'- aGGuAGUCCUCuaccggGCCGGugaAGUCCGCgagGCCg -3'
miRNA:   3'- gCU-UCAGGAG------CGGCC---UCAGGUGg--UGG- -5'
11615 3' -57.2 NC_003085.1 + 40385 0.67 0.57234
Target:  5'- uGGAGccgCaCUUGCUGGGG-CCgaACCACCa -3'
miRNA:   3'- gCUUCa--G-GAGCGGCCUCaGG--UGGUGG- -5'
11615 3' -57.2 NC_003085.1 + 39308 0.66 0.626126
Target:  5'- --cGGUCCUCG-CGGuacUCC-CCGCCg -3'
miRNA:   3'- gcuUCAGGAGCgGCCuc-AGGuGGUGG- -5'
11615 3' -57.2 NC_003085.1 + 38105 0.69 0.421133
Target:  5'- aCGguGUCCUgGCUGacgccGAGuucuUCCGCCACCu -3'
miRNA:   3'- -GCuuCAGGAgCGGC-----CUC----AGGUGGUGG- -5'
11615 3' -57.2 NC_003085.1 + 36166 0.68 0.519717
Target:  5'- uGAAGggCUCGCUGGGGccUCCGauguUCGCCg -3'
miRNA:   3'- gCUUCagGAGCGGCCUC--AGGU----GGUGG- -5'
11615 3' -57.2 NC_003085.1 + 32358 0.74 0.202633
Target:  5'- aGgcGUCCUUGCCGuGGUCC-CUGCCg -3'
miRNA:   3'- gCuuCAGGAGCGGCcUCAGGuGGUGG- -5'
11615 3' -57.2 NC_003085.1 + 31157 0.66 0.593769
Target:  5'- uCGGAcggCCagCGCCGGGgcGUgCACCGCCc -3'
miRNA:   3'- -GCUUca-GGa-GCGGCCU--CAgGUGGUGG- -5'
11615 3' -57.2 NC_003085.1 + 31004 0.67 0.57234
Target:  5'- uGAAGUCCacgCGCUccuccaGGAcGUCCACgACg -3'
miRNA:   3'- gCUUCAGGa--GCGG------CCU-CAGGUGgUGg -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.