miRNA display CGI


Results 1 - 20 of 66 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
26656 3' -60.7 NC_005808.1 + 42499 0.67 0.31692
Target:  5'- uGCCCaagcuGCCGCGcGCAGaaUGCCgGCGu -3'
miRNA:   3'- gCGGG-----UGGUGCuCGUCaaGCGGgCGC- -5'
26656 3' -60.7 NC_005808.1 + 39777 0.67 0.340401
Target:  5'- gCGCgUgGCCGCGAGCAccUgGCCCGaCGa -3'
miRNA:   3'- -GCG-GgUGGUGCUCGUcaAgCGGGC-GC- -5'
26656 3' -60.7 NC_005808.1 + 38864 0.66 0.399948
Target:  5'- cCGCCCucaucaaauCCGCGAGCAugagcGgaUGCgCCGCa -3'
miRNA:   3'- -GCGGGu--------GGUGCUCGU-----CaaGCG-GGCGc -5'
26656 3' -60.7 NC_005808.1 + 38622 0.66 0.382268
Target:  5'- cCGgCCGCgGCGAGCGGcagGCCaGCGg -3'
miRNA:   3'- -GCgGGUGgUGCUCGUCaagCGGgCGC- -5'
26656 3' -60.7 NC_005808.1 + 37989 0.66 0.356741
Target:  5'- cCGCCgacaucauCGCCGaggcCGAGCAGUuccUCGCCUgGCGc -3'
miRNA:   3'- -GCGG--------GUGGU----GCUCGUCA---AGCGGG-CGC- -5'
26656 3' -60.7 NC_005808.1 + 37061 0.7 0.206847
Target:  5'- gGCCCACUcgGCGGGguGcguUUCGCgCGUGg -3'
miRNA:   3'- gCGGGUGG--UGCUCguC---AAGCGgGCGC- -5'
26656 3' -60.7 NC_005808.1 + 36159 0.68 0.301956
Target:  5'- aCGCCU-UCGCGGGCGGUggugUCGCgaGCGa -3'
miRNA:   3'- -GCGGGuGGUGCUCGUCA----AGCGggCGC- -5'
26656 3' -60.7 NC_005808.1 + 35673 0.67 0.340401
Target:  5'- gGCUuucaCACgCGCGAGCGGgUCGgCUCGCGu -3'
miRNA:   3'- gCGG----GUG-GUGCUCGUCaAGC-GGGCGC- -5'
26656 3' -60.7 NC_005808.1 + 35590 0.71 0.181425
Target:  5'- aCGCCCAUCacGCGAGCcGaccCGCUCGCGc -3'
miRNA:   3'- -GCGGGUGG--UGCUCGuCaa-GCGGGCGC- -5'
26656 3' -60.7 NC_005808.1 + 34264 0.77 0.069153
Target:  5'- cCGCCCACgugucgggcaGCGAGCAGUUCGCgggggcgUCGCGg -3'
miRNA:   3'- -GCGGGUGg---------UGCUCGUCAAGCG-------GGCGC- -5'
26656 3' -60.7 NC_005808.1 + 32674 0.74 0.105496
Target:  5'- uGCCCgacgugaaGCC-CGAGCAGUUCGCCgaCGUGc -3'
miRNA:   3'- gCGGG--------UGGuGCUCGUCAAGCGG--GCGC- -5'
26656 3' -60.7 NC_005808.1 + 31719 0.67 0.324609
Target:  5'- aGCCCGCCGCGcGCGGgcuuuuucaCGCCUaaaaauauGCGc -3'
miRNA:   3'- gCGGGUGGUGCuCGUCaa-------GCGGG--------CGC- -5'
26656 3' -60.7 NC_005808.1 + 29313 0.66 0.399948
Target:  5'- uGCCCAgCACuucaaGGCGGUggcggUCGCCgGCc -3'
miRNA:   3'- gCGGGUgGUGc----UCGUCA-----AGCGGgCGc -5'
26656 3' -60.7 NC_005808.1 + 28126 0.71 0.186278
Target:  5'- uGCCCGCUguuCGAGCAGaccgUCGCCgaCGUGu -3'
miRNA:   3'- gCGGGUGGu--GCUCGUCa---AGCGG--GCGC- -5'
26656 3' -60.7 NC_005808.1 + 27889 0.76 0.071333
Target:  5'- gGCgCCACCGCGGGCAG--CGCgCGCGa -3'
miRNA:   3'- gCG-GGUGGUGCUCGUCaaGCGgGCGC- -5'
26656 3' -60.7 NC_005808.1 + 27418 0.66 0.365116
Target:  5'- uCGCgCGCCugGcGCAccgCGCCCgGCGg -3'
miRNA:   3'- -GCGgGUGGugCuCGUcaaGCGGG-CGC- -5'
26656 3' -60.7 NC_005808.1 + 27252 0.68 0.29468
Target:  5'- gCGCCCcaggcucuugGCCgaggcaAUGAaccGCAGUUCGCCgCGCGc -3'
miRNA:   3'- -GCGGG----------UGG------UGCU---CGUCAAGCGG-GCGC- -5'
26656 3' -60.7 NC_005808.1 + 26737 0.67 0.348503
Target:  5'- gGgCCACCGCcAGCg---CGCCCGCu -3'
miRNA:   3'- gCgGGUGGUGcUCGucaaGCGGGCGc -5'
26656 3' -60.7 NC_005808.1 + 26430 0.68 0.301956
Target:  5'- uGCCCucgACCuCGuGCAGUUCGCggaUGCGc -3'
miRNA:   3'- gCGGG---UGGuGCuCGUCAAGCGg--GCGC- -5'
26656 3' -60.7 NC_005808.1 + 26327 0.66 0.399948
Target:  5'- aGCCgACCAgGccGGCGGgu-GCCCGUGc -3'
miRNA:   3'- gCGGgUGGUgC--UCGUCaagCGGGCGC- -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.