miRNA display CGI


Results 1 - 20 of 37 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
18727 3' -50.3 NC_004682.1 + 49161 0.66 0.938766
Target:  5'- -aCCUUGAcguGGUUGGCu--ACCUUGCg -3'
miRNA:   3'- cgGGAACUu--CCAGUUGugcUGGAACG- -5'
18727 3' -50.3 NC_004682.1 + 11475 0.66 0.938766
Target:  5'- uGCCCUgGAucaGGGUCAcgacaucgaGCACGuCUUcGCu -3'
miRNA:   3'- -CGGGAaCU---UCCAGU---------UGUGCuGGAaCG- -5'
18727 3' -50.3 NC_004682.1 + 9762 0.66 0.938766
Target:  5'- aGCCC-----GGUguACGCGgcaGCCUUGCg -3'
miRNA:   3'- -CGGGaacuuCCAguUGUGC---UGGAACG- -5'
18727 3' -50.3 NC_004682.1 + 31031 0.66 0.927545
Target:  5'- gGCCagccGAAGGUCGACAagGugCU-GCu -3'
miRNA:   3'- -CGGgaa-CUUCCAGUUGUg-CugGAaCG- -5'
18727 3' -50.3 NC_004682.1 + 28017 0.66 0.927545
Target:  5'- uGCCCcUGGAGGaCGACAuCGAgCUUc- -3'
miRNA:   3'- -CGGGaACUUCCaGUUGU-GCUgGAAcg -5'
18727 3' -50.3 NC_004682.1 + 12643 0.66 0.915133
Target:  5'- uGCCCgcgaccugGucGGUCAgcuucacgaACGCGuCCUUGUc -3'
miRNA:   3'- -CGGGaa------CuuCCAGU---------UGUGCuGGAACG- -5'
18727 3' -50.3 NC_004682.1 + 48245 0.66 0.915133
Target:  5'- cGCCCggUGu-GG-CGGCAgCGACCUcUGCc -3'
miRNA:   3'- -CGGGa-ACuuCCaGUUGU-GCUGGA-ACG- -5'
18727 3' -50.3 NC_004682.1 + 37265 0.66 0.908481
Target:  5'- gGCCg-UGGGuGGUCAACcagcccgguGCGAUCUUGUu -3'
miRNA:   3'- -CGGgaACUU-CCAGUUG---------UGCUGGAACG- -5'
18727 3' -50.3 NC_004682.1 + 42379 0.67 0.901536
Target:  5'- cGCaCCgagGAAGGUCcGCAUGAgUcgGCa -3'
miRNA:   3'- -CG-GGaa-CUUCCAGuUGUGCUgGaaCG- -5'
18727 3' -50.3 NC_004682.1 + 43116 0.67 0.894301
Target:  5'- gGCaCCgugacggUGAAGGUCA--ACGACCgcaaGCu -3'
miRNA:   3'- -CG-GGa------ACUUCCAGUugUGCUGGaa--CG- -5'
18727 3' -50.3 NC_004682.1 + 10882 0.67 0.886779
Target:  5'- -aCCUUGAAGacCGGCACcACUUUGCa -3'
miRNA:   3'- cgGGAACUUCcaGUUGUGcUGGAACG- -5'
18727 3' -50.3 NC_004682.1 + 14215 0.67 0.886779
Target:  5'- cGCCCggagGAucGGGagGACgACGGCCUggacGCg -3'
miRNA:   3'- -CGGGaa--CU--UCCagUUG-UGCUGGAa---CG- -5'
18727 3' -50.3 NC_004682.1 + 18796 0.67 0.886779
Target:  5'- uGCgCUgcUGGAGGgcugcCuuCGCGGCCUUGUc -3'
miRNA:   3'- -CGgGA--ACUUCCa----GuuGUGCUGGAACG- -5'
18727 3' -50.3 NC_004682.1 + 20006 0.67 0.878977
Target:  5'- cGCCCUUGAAcuUCAGgACGAacgUGCc -3'
miRNA:   3'- -CGGGAACUUccAGUUgUGCUggaACG- -5'
18727 3' -50.3 NC_004682.1 + 29417 0.67 0.878977
Target:  5'- gGCCgCUgGAAGGUCuACGCGGuCCacgucgGCa -3'
miRNA:   3'- -CGG-GAaCUUCCAGuUGUGCU-GGaa----CG- -5'
18727 3' -50.3 NC_004682.1 + 6324 0.67 0.870901
Target:  5'- aGCCC--GGAGGUCGGCGucacUGACCUc-- -3'
miRNA:   3'- -CGGGaaCUUCCAGUUGU----GCUGGAacg -5'
18727 3' -50.3 NC_004682.1 + 20761 0.67 0.870901
Target:  5'- gGCCCUUGAAGuUCAuCACccacuuGGCCaUGUg -3'
miRNA:   3'- -CGGGAACUUCcAGUuGUG------CUGGaACG- -5'
18727 3' -50.3 NC_004682.1 + 37069 0.68 0.853956
Target:  5'- aCCCUcGAuGGUCAGCACGuCaagGCc -3'
miRNA:   3'- cGGGAaCUuCCAGUUGUGCuGgaaCG- -5'
18727 3' -50.3 NC_004682.1 + 12320 0.68 0.8424
Target:  5'- uGCUCggUGuAGGUCGACuccacgaacagaggACGACCgUUGCc -3'
miRNA:   3'- -CGGGa-ACuUCCAGUUG--------------UGCUGG-AACG- -5'
18727 3' -50.3 NC_004682.1 + 5613 0.68 0.826685
Target:  5'- cGCCCgcugGAAccgcgcacucgcGGUCgGugACGACCUgcUGCa -3'
miRNA:   3'- -CGGGaa--CUU------------CCAG-UugUGCUGGA--ACG- -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.