miRNA display CGI


Results 1 - 20 of 38 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
18386 3' -56.6 NC_004681.1 + 31385 0.66 0.734874
Target:  5'- aCGGuGAGGGCUacgGGGCGcGCGACGg-- -3'
miRNA:   3'- -GCC-UUUCCGGga-CUCGC-CGUUGCagu -5'
18386 3' -56.6 NC_004681.1 + 1060 0.67 0.672044
Target:  5'- aGGAuguacGGCCCgaugGAGCccuGGCAGCG-CGa -3'
miRNA:   3'- gCCUuu---CCGGGa---CUCG---CCGUUGCaGU- -5'
18386 3' -56.6 NC_004681.1 + 31241 0.67 0.672044
Target:  5'- gGGAccGGCgCC-GAGUguuuggcuacGGCAACGUCGg -3'
miRNA:   3'- gCCUuuCCG-GGaCUCG----------CCGUUGCAGU- -5'
18386 3' -56.6 NC_004681.1 + 475 0.67 0.682664
Target:  5'- uGGGGAGGCgCCUggccGAGauGCugGGCGUCAa -3'
miRNA:   3'- gCCUUUCCG-GGA----CUCgcCG--UUGCAGU- -5'
18386 3' -56.6 NC_004681.1 + 21938 0.67 0.682664
Target:  5'- uCGGGAAGGaCCUcuucgUG-GCGGCcuGGCGUCc -3'
miRNA:   3'- -GCCUUUCC-GGG-----ACuCGCCG--UUGCAGu -5'
18386 3' -56.6 NC_004681.1 + 26206 0.66 0.693238
Target:  5'- aCGGAAAcguccuGGCCCgccacGGCGGCGAUGcCc -3'
miRNA:   3'- -GCCUUU------CCGGGac---UCGCCGUUGCaGu -5'
18386 3' -56.6 NC_004681.1 + 27619 0.66 0.703757
Target:  5'- uCGGu--GGCgCUG-GCGGCGGCGgCGg -3'
miRNA:   3'- -GCCuuuCCGgGACuCGCCGUUGCaGU- -5'
18386 3' -56.6 NC_004681.1 + 55357 0.66 0.713167
Target:  5'- gCGGAgucgggauugacgAAGuGCCCUGcaccAGCGaCGACGUCGu -3'
miRNA:   3'- -GCCU-------------UUC-CGGGAC----UCGCcGUUGCAGU- -5'
18386 3' -56.6 NC_004681.1 + 38828 0.66 0.724585
Target:  5'- ----cGGGCCUacGGCGGCAGCGUgGa -3'
miRNA:   3'- gccuuUCCGGGacUCGCCGUUGCAgU- -5'
18386 3' -56.6 NC_004681.1 + 37389 0.67 0.672044
Target:  5'- uGGAugcccgcGGCCUUcuuGGCGGCGACGgUCAa -3'
miRNA:   3'- gCCUuu-----CCGGGAc--UCGCCGUUGC-AGU- -5'
18386 3' -56.6 NC_004681.1 + 21413 0.67 0.672044
Target:  5'- aGGAGAGcGUCCUGGGCaaggugcuGGCGcCGUUc -3'
miRNA:   3'- gCCUUUC-CGGGACUCG--------CCGUuGCAGu -5'
18386 3' -56.6 NC_004681.1 + 59193 0.68 0.633587
Target:  5'- aCGGAc-GGCCUcccGGGCGGCucguccagcuuccagAACGUCAg -3'
miRNA:   3'- -GCCUuuCCGGGa--CUCGCCG---------------UUGCAGU- -5'
18386 3' -56.6 NC_004681.1 + 24982 0.75 0.259907
Target:  5'- aCGG--GGGCUCUG-GCGGCAcagGCGUCGg -3'
miRNA:   3'- -GCCuuUCCGGGACuCGCCGU---UGCAGU- -5'
18386 3' -56.6 NC_004681.1 + 15268 0.74 0.273136
Target:  5'- aGGAcauGGGaCCUGA-CGGCAACGUCAu -3'
miRNA:   3'- gCCUu--UCCgGGACUcGCCGUUGCAGU- -5'
18386 3' -56.6 NC_004681.1 + 19637 0.71 0.434985
Target:  5'- aGGguGGGCaagCCUGGGaCGGCAGCGgCAu -3'
miRNA:   3'- gCCuuUCCG---GGACUC-GCCGUUGCaGU- -5'
18386 3' -56.6 NC_004681.1 + 17879 0.7 0.482319
Target:  5'- aGGAccuccagAAGGaauuCCUGGGCGGCGGCGgCGa -3'
miRNA:   3'- gCCU-------UUCCg---GGACUCGCCGUUGCaGU- -5'
18386 3' -56.6 NC_004681.1 + 1575 0.7 0.503357
Target:  5'- aGGAAGacGGCCCcaagaacgGAGCGG-AGCGUCu -3'
miRNA:   3'- gCCUUU--CCGGGa-------CUCGCCgUUGCAGu -5'
18386 3' -56.6 NC_004681.1 + 32218 0.69 0.554917
Target:  5'- uGGAGcAGGCCaucGcAGCGGCAGCG-CGg -3'
miRNA:   3'- gCCUU-UCCGGga-C-UCGCCGUUGCaGU- -5'
18386 3' -56.6 NC_004681.1 + 46759 0.68 0.597241
Target:  5'- gGGAccGGCgCUGcGCGcGCAcgGCGUCAc -3'
miRNA:   3'- gCCUuuCCGgGACuCGC-CGU--UGCAGU- -5'
18386 3' -56.6 NC_004681.1 + 39508 0.68 0.629305
Target:  5'- gCGGGAcucauGGCCCaagcGGGCuGGCAaucccgGCGUCAg -3'
miRNA:   3'- -GCCUUu----CCGGGa---CUCG-CCGU------UGCAGU- -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.