miRNA display CGI


Results 1 - 20 of 27 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
12649 3' -60.9 NC_003345.1 + 73417 0.66 0.557123
Target:  5'- cUCaGCcaccGcCGCCGGGUUCugCCGaCUCg -3'
miRNA:   3'- uAGcCG----CaGUGGCCCAAGugGGC-GGG- -5'
12649 3' -60.9 NC_003345.1 + 4521 0.66 0.507363
Target:  5'- cAUCGGUGUCACCcGGUa-GCUCGUgCu -3'
miRNA:   3'- -UAGCCGCAGUGGcCCAagUGGGCGgG- -5'
12649 3' -60.9 NC_003345.1 + 10197 0.67 0.487982
Target:  5'- uGUUGGCGUCGgCGuGGaaagUCGaagcCCCGCCg -3'
miRNA:   3'- -UAGCCGCAGUgGC-CCa---AGU----GGGCGGg -5'
12649 3' -60.9 NC_003345.1 + 32758 0.67 0.478423
Target:  5'- gGUCGGCGUugaCACCGcGcucuUUCAUCCGUUCa -3'
miRNA:   3'- -UAGCCGCA---GUGGC-Cc---AAGUGGGCGGG- -5'
12649 3' -60.9 NC_003345.1 + 5687 0.67 0.475573
Target:  5'- uUCGGCGUCucguagaccguuCCGGGcUUCACguagucgUCGUCCu -3'
miRNA:   3'- uAGCCGCAGu-----------GGCCC-AAGUG-------GGCGGG- -5'
12649 3' -60.9 NC_003345.1 + 71509 0.67 0.468957
Target:  5'- aGUCGGaCGccCACCuucaGGGUucuguacccugUCGCCaCGCCCg -3'
miRNA:   3'- -UAGCC-GCa-GUGG----CCCA-----------AGUGG-GCGGG- -5'
12649 3' -60.9 NC_003345.1 + 69115 0.67 0.468957
Target:  5'- -aCGG-GUCGuuCCGGGga-ACUCGCCCu -3'
miRNA:   3'- uaGCCgCAGU--GGCCCaagUGGGCGGG- -5'
12649 3' -60.9 NC_003345.1 + 46765 0.67 0.450318
Target:  5'- cGUCGGCGUaguccCGCCacaGGUUCuccuccacgACCgCGCCCu -3'
miRNA:   3'- -UAGCCGCA-----GUGGc--CCAAG---------UGG-GCGGG- -5'
12649 3' -60.9 NC_003345.1 + 64424 0.68 0.414309
Target:  5'- -aCGGCGUCAagGGGaUUCAcuucaugcacCCCgGCCCg -3'
miRNA:   3'- uaGCCGCAGUggCCC-AAGU----------GGG-CGGG- -5'
12649 3' -60.9 NC_003345.1 + 21767 0.68 0.405586
Target:  5'- cGUCGGaGUCACCGucgUCGuCgCCGCCCg -3'
miRNA:   3'- -UAGCCgCAGUGGCccaAGU-G-GGCGGG- -5'
12649 3' -60.9 NC_003345.1 + 29820 0.68 0.39698
Target:  5'- cUCGGuCGUCuacuguACCGGGUgCGcCCCGUUCg -3'
miRNA:   3'- uAGCC-GCAG------UGGCCCAaGU-GGGCGGG- -5'
12649 3' -60.9 NC_003345.1 + 46822 0.68 0.39698
Target:  5'- --aGGCGUCACgCGGGUUguCCUGauacuCCg -3'
miRNA:   3'- uagCCGCAGUG-GCCCAAguGGGCg----GG- -5'
12649 3' -60.9 NC_003345.1 + 21865 0.68 0.396126
Target:  5'- gGUCGGCGgcCugCGGGa-CACCCucgggaaGCCCc -3'
miRNA:   3'- -UAGCCGCa-GugGCCCaaGUGGG-------CGGG- -5'
12649 3' -60.9 NC_003345.1 + 9719 0.69 0.371879
Target:  5'- -aCGGUGUUccguCCGGGUcguaCAUCCGCCa -3'
miRNA:   3'- uaGCCGCAGu---GGCCCAa---GUGGGCGGg -5'
12649 3' -60.9 NC_003345.1 + 42613 0.69 0.363755
Target:  5'- cGUCGGCGUCuCUGGuGagcggcuaaUUgACCCGUCCu -3'
miRNA:   3'- -UAGCCGCAGuGGCC-C---------AAgUGGGCGGG- -5'
12649 3' -60.9 NC_003345.1 + 21450 0.69 0.363755
Target:  5'- --aGGC-UCACCGGGUcgUCGCCCucacggacaGCCUc -3'
miRNA:   3'- uagCCGcAGUGGCCCA--AGUGGG---------CGGG- -5'
12649 3' -60.9 NC_003345.1 + 24582 0.69 0.361342
Target:  5'- cUCGGCGgcaggaCGCCGGGaggUCGCCCucgaaguacggaacGCCa -3'
miRNA:   3'- uAGCCGCa-----GUGGCCCa--AGUGGG--------------CGGg -5'
12649 3' -60.9 NC_003345.1 + 72305 0.69 0.355756
Target:  5'- cGUCGuCGUCGUCGGGgcCACcgCCGCCCg -3'
miRNA:   3'- -UAGCcGCAGUGGCCCaaGUG--GGCGGG- -5'
12649 3' -60.9 NC_003345.1 + 61405 0.69 0.340131
Target:  5'- cUCGGCGUCACCcugcguGGUgUCAa-CGCCCu -3'
miRNA:   3'- uAGCCGCAGUGGc-----CCA-AGUggGCGGG- -5'
12649 3' -60.9 NC_003345.1 + 42505 0.7 0.325009
Target:  5'- gGUCGcGgGUCGCCGGacugauuuuuGUgaccUCGCCCGUCCc -3'
miRNA:   3'- -UAGC-CgCAGUGGCC----------CA----AGUGGGCGGG- -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.