miRNA display CGI


Results 1 - 20 of 31 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
12998 3' -48.8 NC_003387.1 + 45864 0.66 0.967697
Target:  5'- cGGCGuCU---UGUUGGCGcCCUgAGCGGu -3'
miRNA:   3'- -CCGC-GAaacACAACUGU-GGAgUUGUC- -5'
12998 3' -48.8 NC_003387.1 + 9177 0.66 0.967697
Target:  5'- cGGCGUcaUUUccGUcuagcUGACACCUC-ACAGa -3'
miRNA:   3'- -CCGCG--AAAcaCA-----ACUGUGGAGuUGUC- -5'
12998 3' -48.8 NC_003387.1 + 1618 0.66 0.964069
Target:  5'- gGGCGC---GUGUgGGCAgCCUCGcGCGGg -3'
miRNA:   3'- -CCGCGaaaCACAaCUGU-GGAGU-UGUC- -5'
12998 3' -48.8 NC_003387.1 + 47362 0.66 0.960166
Target:  5'- -aUGCUUaacUGUUGACAgCUCAACAc -3'
miRNA:   3'- ccGCGAAac-ACAACUGUgGAGUUGUc -5'
12998 3' -48.8 NC_003387.1 + 21758 0.66 0.960166
Target:  5'- cGGUGC--UGUGggGAUuCCUgGGCAGc -3'
miRNA:   3'- -CCGCGaaACACaaCUGuGGAgUUGUC- -5'
12998 3' -48.8 NC_003387.1 + 37617 0.66 0.955979
Target:  5'- aGGCGCccc--GUUGACGCCgaUCcGCGGg -3'
miRNA:   3'- -CCGCGaaacaCAACUGUGG--AGuUGUC- -5'
12998 3' -48.8 NC_003387.1 + 19281 0.66 0.955979
Target:  5'- uGCGCgagGUGgUGGCGCgcagCAGCAGg -3'
miRNA:   3'- cCGCGaaaCACaACUGUGga--GUUGUC- -5'
12998 3' -48.8 NC_003387.1 + 5343 0.66 0.955979
Target:  5'- cGCGCUUgcggugucgGUGUUGAgcUgUCAACAGu -3'
miRNA:   3'- cCGCGAAa--------CACAACUguGgAGUUGUC- -5'
12998 3' -48.8 NC_003387.1 + 496 0.66 0.955979
Target:  5'- uGGUGC----UGUUGACuCgUCAGCAGg -3'
miRNA:   3'- -CCGCGaaacACAACUGuGgAGUUGUC- -5'
12998 3' -48.8 NC_003387.1 + 29069 0.67 0.951503
Target:  5'- cGGCGUUUcuagGgccUGUUGACGCgC-CAACAGu -3'
miRNA:   3'- -CCGCGAAa---C---ACAACUGUG-GaGUUGUC- -5'
12998 3' -48.8 NC_003387.1 + 900 0.67 0.948676
Target:  5'- cGGCGCgcucGUGUUcgcgcugugcaucaaGACGCCUaacaCGACGGu -3'
miRNA:   3'- -CCGCGaaa-CACAA---------------CUGUGGA----GUUGUC- -5'
12998 3' -48.8 NC_003387.1 + 3354 0.67 0.948676
Target:  5'- uGGCGCg--GUcGUcGACggcaucaccaagcugGCCUCGGCGGg -3'
miRNA:   3'- -CCGCGaaaCA-CAaCUG---------------UGGAGUUGUC- -5'
12998 3' -48.8 NC_003387.1 + 52458 0.67 0.941662
Target:  5'- uGGC-CUUggGUGgcacUGACACCcUCGACAa -3'
miRNA:   3'- -CCGcGAAa-CACa---ACUGUGG-AGUUGUc -5'
12998 3' -48.8 NC_003387.1 + 25177 0.68 0.918336
Target:  5'- cGGCGCg--GUGgccccGGCGCCgccgccgCGGCAGc -3'
miRNA:   3'- -CCGCGaaaCACaa---CUGUGGa------GUUGUC- -5'
12998 3' -48.8 NC_003387.1 + 12024 0.68 0.91174
Target:  5'- cGGCGCaugcgGUGUggcagGGCAUCgUCGACAa -3'
miRNA:   3'- -CCGCGaaa--CACAa----CUGUGG-AGUUGUc -5'
12998 3' -48.8 NC_003387.1 + 26850 0.69 0.874288
Target:  5'- cGGCGagcUGUGgauGCACCUCGGCGa -3'
miRNA:   3'- -CCGCgaaACACaacUGUGGAGUUGUc -5'
12998 3' -48.8 NC_003387.1 + 49784 0.69 0.857321
Target:  5'- cGCGCUgcggGUUGGCGCCgaaccgCGACAc -3'
miRNA:   3'- cCGCGAaacaCAACUGUGGa-----GUUGUc -5'
12998 3' -48.8 NC_003387.1 + 40322 0.7 0.839311
Target:  5'- cGGCGCaccgGaGUUGAuCGCCUgCAGCAGc -3'
miRNA:   3'- -CCGCGaaa-CaCAACU-GUGGA-GUUGUC- -5'
12998 3' -48.8 NC_003387.1 + 44625 0.7 0.820336
Target:  5'- uGGCGCgagcgUGUGgcccUGGCcgcgGCCUCGGCGa -3'
miRNA:   3'- -CCGCGaa---ACACa---ACUG----UGGAGUUGUc -5'
12998 3' -48.8 NC_003387.1 + 2714 0.71 0.79026
Target:  5'- -cCGUcgUGcUGUUGAUACCUCAACAc -3'
miRNA:   3'- ccGCGaaAC-ACAACUGUGGAGUUGUc -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.