miRNA display CGI


Results 1 - 20 of 36 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
1357 5' -49.5 NC_001335.1 + 9852 0.66 0.968682
Target:  5'- gGGGCUCGggGAgccugGGAcCGUCGGguCGGCg -3'
miRNA:   3'- gCUUGGGCaaCUa----CUU-GCAGCU--GUCG- -5'
1357 5' -49.5 NC_001335.1 + 17339 0.7 0.845951
Target:  5'- uGGACCagGUUGAcGAugGUCGGaacuagcuCAGCg -3'
miRNA:   3'- gCUUGGg-CAACUaCUugCAGCU--------GUCG- -5'
1357 5' -49.5 NC_001335.1 + 16438 0.7 0.827736
Target:  5'- gGAACaCCGgggUGAgucccugcugGAACGUCGAggagaCAGCg -3'
miRNA:   3'- gCUUG-GGCa--ACUa---------CUUGCAGCU-----GUCG- -5'
1357 5' -49.5 NC_001335.1 + 26916 0.7 0.827736
Target:  5'- gGAACUCGgagacgUGAUGugguACGUCGccCAGCu -3'
miRNA:   3'- gCUUGGGCa-----ACUACu---UGCAGCu-GUCG- -5'
1357 5' -49.5 NC_001335.1 + 49730 0.7 0.818296
Target:  5'- uGuGCCCGUUGcgGucuguGCGUCaACGGCc -3'
miRNA:   3'- gCuUGGGCAACuaCu----UGCAGcUGUCG- -5'
1357 5' -49.5 NC_001335.1 + 1433 0.71 0.768213
Target:  5'- uGGGCgCGUgcUGuuucUGGGCGUCGAUGGCg -3'
miRNA:   3'- gCUUGgGCA--ACu---ACUUGCAGCUGUCG- -5'
1357 5' -49.5 NC_001335.1 + 24924 0.72 0.747055
Target:  5'- aGAACCCGUgccgGAUcGAGCagaaGGCAGCc -3'
miRNA:   3'- gCUUGGGCAa---CUA-CUUGcag-CUGUCG- -5'
1357 5' -49.5 NC_001335.1 + 20593 0.76 0.491766
Target:  5'- gCGAGCUggcUGUUGAUGAACGagGuCAGCa -3'
miRNA:   3'- -GCUUGG---GCAACUACUUGCagCuGUCG- -5'
1357 5' -49.5 NC_001335.1 + 16880 1.14 0.002065
Target:  5'- cCGAACCCGUUGAUGAACGUCGACAGCg -3'
miRNA:   3'- -GCUUGGGCAACUACUUGCAGCUGUCG- -5'
1357 5' -49.5 NC_001335.1 + 7895 0.69 0.854707
Target:  5'- uCGAACCCGagGGUGAuccggucaccGCG-CuGCAGCg -3'
miRNA:   3'- -GCUUGGGCaaCUACU----------UGCaGcUGUCG- -5'
1357 5' -49.5 NC_001335.1 + 48805 0.68 0.908665
Target:  5'- aCGAGCCCGgUGA-GAGCGgauacaucaagCGcaACGGCa -3'
miRNA:   3'- -GCUUGGGCaACUaCUUGCa----------GC--UGUCG- -5'
1357 5' -49.5 NC_001335.1 + 19951 0.66 0.965212
Target:  5'- uCGGACCCauccacucGUUGAUGucCGUggggucaucaGGCAGCg -3'
miRNA:   3'- -GCUUGGG--------CAACUACuuGCAg---------CUGUCG- -5'
1357 5' -49.5 NC_001335.1 + 9389 0.66 0.961481
Target:  5'- uGAucgGCgCGUUGGUGAA-GUUGGcCAGCu -3'
miRNA:   3'- gCU---UGgGCAACUACUUgCAGCU-GUCG- -5'
1357 5' -49.5 NC_001335.1 + 3237 0.66 0.957482
Target:  5'- ---cCCCGagGggGAGCGgcugguagCGGCAGCg -3'
miRNA:   3'- gcuuGGGCaaCuaCUUGCa-------GCUGUCG- -5'
1357 5' -49.5 NC_001335.1 + 36470 0.67 0.943813
Target:  5'- aGGugCUGUggucGAUGGAgGUCGGCAa- -3'
miRNA:   3'- gCUugGGCAa---CUACUUgCAGCUGUcg -5'
1357 5' -49.5 NC_001335.1 + 27135 0.67 0.938685
Target:  5'- uGuuCCCGgUGAUGAucugaugcACGUCGACAu- -3'
miRNA:   3'- gCuuGGGCaACUACU--------UGCAGCUGUcg -5'
1357 5' -49.5 NC_001335.1 + 22765 0.67 0.933266
Target:  5'- -aGACCaGUUGGUGGcCGUCGGCAc- -3'
miRNA:   3'- gcUUGGgCAACUACUuGCAGCUGUcg -5'
1357 5' -49.5 NC_001335.1 + 16711 0.67 0.927555
Target:  5'- uGAAgCCGUUGGUGAAC-UCcuGCAGg -3'
miRNA:   3'- gCUUgGGCAACUACUUGcAGc-UGUCg -5'
1357 5' -49.5 NC_001335.1 + 7469 0.68 0.914607
Target:  5'- uCGGugCCGggGAugUGGGCGuugcagaUCGACAGg -3'
miRNA:   3'- -GCUugGGCaaCU--ACUUGC-------AGCUGUCg -5'
1357 5' -49.5 NC_001335.1 + 25888 0.66 0.957482
Target:  5'- aGAugguGCCCu----UGGugGUCGACGGCc -3'
miRNA:   3'- gCU----UGGGcaacuACUugCAGCUGUCG- -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.