miRNA display CGI


Results 1 - 20 of 22 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
12457 3' -50.7 NC_003324.1 + 49969 0.66 0.932897
Target:  5'- -cAUGGCGAUcGGCGcUGCccugaUGgGGGCa -3'
miRNA:   3'- guUAUUGCUAuCCGU-ACGc----ACgCCCG- -5'
12457 3' -50.7 NC_003324.1 + 16141 0.66 0.92714
Target:  5'- uCGGUAGCGGgggccgcgccAGGCAUcGCuGgcaccgagGCGGGCa -3'
miRNA:   3'- -GUUAUUGCUa---------UCCGUA-CG-Ca-------CGCCCG- -5'
12457 3' -50.7 NC_003324.1 + 1902 0.66 0.921087
Target:  5'- ---gAACGGUAGGCAUGCacacaagccaauGUcagagaaugcGCuGGGCu -3'
miRNA:   3'- guuaUUGCUAUCCGUACG------------CA----------CG-CCCG- -5'
12457 3' -50.7 NC_003324.1 + 50431 0.66 0.921087
Target:  5'- ---aGGCGcUGGGCGUG-GUGCagcucgcaGGGCu -3'
miRNA:   3'- guuaUUGCuAUCCGUACgCACG--------CCCG- -5'
12457 3' -50.7 NC_003324.1 + 30313 0.66 0.914739
Target:  5'- ---cGGCGGU-GGCGUcgcucggcGCGUGCuGGCu -3'
miRNA:   3'- guuaUUGCUAuCCGUA--------CGCACGcCCG- -5'
12457 3' -50.7 NC_003324.1 + 24396 0.66 0.908775
Target:  5'- ---aGAUGGUcGGGCAUGCGgauaugcacugcgccGuCGGGCg -3'
miRNA:   3'- guuaUUGCUA-UCCGUACGCa--------------C-GCCCG- -5'
12457 3' -50.7 NC_003324.1 + 18014 0.67 0.901165
Target:  5'- gGAUAcCGAUuGGCcgGCGccaCGGGCc -3'
miRNA:   3'- gUUAUuGCUAuCCGuaCGCac-GCCCG- -5'
12457 3' -50.7 NC_003324.1 + 29951 0.67 0.901165
Target:  5'- ---gGGCGAgGGGCGuccUGCGUaGCGGcgGCa -3'
miRNA:   3'- guuaUUGCUaUCCGU---ACGCA-CGCC--CG- -5'
12457 3' -50.7 NC_003324.1 + 28697 0.67 0.886441
Target:  5'- ---cAACGAUccGGGCcacgaggGCGacaGCGGGCg -3'
miRNA:   3'- guuaUUGCUA--UCCGua-----CGCa--CGCCCG- -5'
12457 3' -50.7 NC_003324.1 + 9664 0.67 0.878659
Target:  5'- ----cGCGcUGGGCG-GCGUGgggcCGGGCg -3'
miRNA:   3'- guuauUGCuAUCCGUaCGCAC----GCCCG- -5'
12457 3' -50.7 NC_003324.1 + 17873 0.67 0.869786
Target:  5'- ----cGCGAUAGaGCAUGUugauguuGUGCuGGCg -3'
miRNA:   3'- guuauUGCUAUC-CGUACG-------CACGcCCG- -5'
12457 3' -50.7 NC_003324.1 + 48989 0.68 0.853713
Target:  5'- ---cGACGAUcuuguGGCGggugGCGgaguccuggaUGCGGGCg -3'
miRNA:   3'- guuaUUGCUAu----CCGUa---CGC----------ACGCCCG- -5'
12457 3' -50.7 NC_003324.1 + 24009 0.68 0.853713
Target:  5'- ---cGGCGGUAgGGCugcUGCGUGCGcuuggagaagauGGCg -3'
miRNA:   3'- guuaUUGCUAU-CCGu--ACGCACGC------------CCG- -5'
12457 3' -50.7 NC_003324.1 + 24998 0.68 0.835828
Target:  5'- ----uGCGAccGGGCG-GCGUGCuGGCg -3'
miRNA:   3'- guuauUGCUa-UCCGUaCGCACGcCCG- -5'
12457 3' -50.7 NC_003324.1 + 38565 0.7 0.760264
Target:  5'- ---gGGCGAUAgGGCAcgcGCGUgaugcgguucugcgaGCGGGCg -3'
miRNA:   3'- guuaUUGCUAU-CCGUa--CGCA---------------CGCCCG- -5'
12457 3' -50.7 NC_003324.1 + 30140 0.7 0.723515
Target:  5'- cCGGUGucGCGAccGGCG-GCGUGaUGGGCg -3'
miRNA:   3'- -GUUAU--UGCUauCCGUaCGCAC-GCCCG- -5'
12457 3' -50.7 NC_003324.1 + 36279 0.73 0.554359
Target:  5'- --uUGACGAUGauGGCAU-CGggGCGGGCg -3'
miRNA:   3'- guuAUUGCUAU--CCGUAcGCa-CGCCCG- -5'
12457 3' -50.7 NC_003324.1 + 56654 0.74 0.510393
Target:  5'- gCGAUAGCGGcguUAugggcggcGGCAUGgGUcGCGGGCa -3'
miRNA:   3'- -GUUAUUGCU---AU--------CCGUACgCA-CGCCCG- -5'
12457 3' -50.7 NC_003324.1 + 7461 0.74 0.499623
Target:  5'- ---aAGCc--GGGCA-GCGUGCGGGCa -3'
miRNA:   3'- guuaUUGcuaUCCGUaCGCACGCCCG- -5'
12457 3' -50.7 NC_003324.1 + 56530 0.75 0.457621
Target:  5'- ---cAACauuuGGCAUGCGaUGCGGGCg -3'
miRNA:   3'- guuaUUGcuauCCGUACGC-ACGCCCG- -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.