miRNA display CGI


Results 1 - 20 of 33 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
23771 5' -59.9 NC_005261.1 + 1269 0.71 0.359665
Target:  5'- -gGGGUGacugugCCgGCGCCCAGGCcGGCGGg -3'
miRNA:   3'- caCCUACa-----GG-UGCGGGUCCGuCCGUU- -5'
23771 5' -59.9 NC_005261.1 + 1369 0.69 0.463691
Target:  5'- -cGGGcccugGUCCGCGuCCCAGGCcacgccGGGCGc -3'
miRNA:   3'- caCCUa----CAGGUGC-GGGUCCG------UCCGUu -5'
23771 5' -59.9 NC_005261.1 + 3432 0.67 0.601803
Target:  5'- -cGGg---CCAgCGUCCAGGCGGGCGc -3'
miRNA:   3'- caCCuacaGGU-GCGGGUCCGUCCGUu -5'
23771 5' -59.9 NC_005261.1 + 6225 0.69 0.454417
Target:  5'- cUGGcgGUCCagguGCGCCCGGGgaGGGCc- -3'
miRNA:   3'- cACCuaCAGG----UGCGGGUCCg-UCCGuu -5'
23771 5' -59.9 NC_005261.1 + 9643 0.66 0.632563
Target:  5'- cUGGGUGggCgGgGCCCacucGGGCGGGCGc -3'
miRNA:   3'- cACCUACa-GgUgCGGG----UCCGUCCGUu -5'
23771 5' -59.9 NC_005261.1 + 12079 0.66 0.642827
Target:  5'- -cGGc-GUCCGCGCCgGGGC-GGCu- -3'
miRNA:   3'- caCCuaCAGGUGCGGgUCCGuCCGuu -5'
23771 5' -59.9 NC_005261.1 + 13071 0.67 0.571244
Target:  5'- -cGGGcgcGUCCGCcgGCCCGucGGCGGGCGg -3'
miRNA:   3'- caCCUa--CAGGUG--CGGGU--CCGUCCGUu -5'
23771 5' -59.9 NC_005261.1 + 23485 0.68 0.541073
Target:  5'- aGUGcGcgGgCC-CGCCUGGGCAGGCGc -3'
miRNA:   3'- -CAC-CuaCaGGuGCGGGUCCGUCCGUu -5'
23771 5' -59.9 NC_005261.1 + 23728 0.7 0.401004
Target:  5'- -cGGGUGgCCGCGCCgAGGCgcguccgggagGGGCGGg -3'
miRNA:   3'- caCCUACaGGUGCGGgUCCG-----------UCCGUU- -5'
23771 5' -59.9 NC_005261.1 + 23786 0.67 0.601803
Target:  5'- -aGGGUGggCuCGCCgGGGCAGGCc- -3'
miRNA:   3'- caCCUACagGuGCGGgUCCGUCCGuu -5'
23771 5' -59.9 NC_005261.1 + 23843 0.67 0.601803
Target:  5'- -aGGGUGggCuCGCCgGGGCAGGCc- -3'
miRNA:   3'- caCCUACagGuGCGGgUCCGUCCGuu -5'
23771 5' -59.9 NC_005261.1 + 31717 0.66 0.682694
Target:  5'- cGUGGAccccgcgaacUGgCCGCGCgauggcccggccgUCGGGCAGGCGc -3'
miRNA:   3'- -CACCU----------ACaGGUGCG-------------GGUCCGUCCGUu -5'
23771 5' -59.9 NC_005261.1 + 39847 0.82 0.075989
Target:  5'- cGUGGAUGUCCcgccggGCGCCCAGGCAcacGGCc- -3'
miRNA:   3'- -CACCUACAGG------UGCGGGUCCGU---CCGuu -5'
23771 5' -59.9 NC_005261.1 + 46110 0.66 0.653081
Target:  5'- -gGGGgccgugGUCCGCGUCCA-GCAGGUc- -3'
miRNA:   3'- caCCUa-----CAGGUGCGGGUcCGUCCGuu -5'
23771 5' -59.9 NC_005261.1 + 47075 0.67 0.612044
Target:  5'- cGUGGuacgcGUgCACGCCgaAGGCGGGCc- -3'
miRNA:   3'- -CACCua---CAgGUGCGGg-UCCGUCCGuu -5'
23771 5' -59.9 NC_005261.1 + 52251 0.67 0.580379
Target:  5'- cGUGGGagggcgcUGUCCGCGCCgGGG--GGCGGu -3'
miRNA:   3'- -CACCU-------ACAGGUGCGGgUCCguCCGUU- -5'
23771 5' -59.9 NC_005261.1 + 52990 0.68 0.521257
Target:  5'- -aGGcgGgggCgGCGCCCAGGCGucGGCGc -3'
miRNA:   3'- caCCuaCa--GgUGCGGGUCCGU--CCGUu -5'
23771 5' -59.9 NC_005261.1 + 55262 0.66 0.652057
Target:  5'- -aGGAgGUCUGCGCCCccuggcgcgccggAGGCGGGgGc -3'
miRNA:   3'- caCCUaCAGGUGCGGG-------------UCCGUCCgUu -5'
23771 5' -59.9 NC_005261.1 + 59086 0.7 0.436177
Target:  5'- -cGGGUGcgCCGCGCCCucgcgcucGCAGGCGc -3'
miRNA:   3'- caCCUACa-GGUGCGGGuc------CGUCCGUu -5'
23771 5' -59.9 NC_005261.1 + 60329 0.66 0.680661
Target:  5'- gGUGGAcgacggUGUuugcggcgccgcggCCGCGCgCCAGGCAGuGCu- -3'
miRNA:   3'- -CACCU------ACA--------------GGUGCG-GGUCCGUC-CGuu -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.