miRNA display CGI


Results 1 - 20 of 23 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
2628 3' -52.9 NC_001491.2 + 68922 0.66 0.970673
Target:  5'- cAACGCccgccGGCGUGGCCGGca-UCAgCu -3'
miRNA:   3'- -UUGCGuu---UCGCACCGGUCucaAGUgG- -5'
2628 3' -52.9 NC_001491.2 + 100014 0.66 0.967586
Target:  5'- cGGCGU--AGCGcGaGCCAGuGUUCGCg -3'
miRNA:   3'- -UUGCGuuUCGCaC-CGGUCuCAAGUGg -5'
2628 3' -52.9 NC_001491.2 + 83624 0.66 0.964275
Target:  5'- gGACGCGGccaCGUGGCaccuauCAGAGgaCACCc -3'
miRNA:   3'- -UUGCGUUuc-GCACCG------GUCUCaaGUGG- -5'
2628 3' -52.9 NC_001491.2 + 2314 0.66 0.960735
Target:  5'- -cCGcCGGGGCGggaGGCCGgGAGUcCGCCc -3'
miRNA:   3'- uuGC-GUUUCGCa--CCGGU-CUCAaGUGG- -5'
2628 3' -52.9 NC_001491.2 + 1053 0.66 0.960735
Target:  5'- --aGCAGAGgGcgGGgCGGGGUUCAgCg -3'
miRNA:   3'- uugCGUUUCgCa-CCgGUCUCAAGUgG- -5'
2628 3' -52.9 NC_001491.2 + 119772 0.66 0.95696
Target:  5'- uGCGCGGgauGC-UGGCCAGAGacgaaACCg -3'
miRNA:   3'- uUGCGUUu--CGcACCGGUCUCaag--UGG- -5'
2628 3' -52.9 NC_001491.2 + 28868 0.67 0.939414
Target:  5'- -uCGcCGGAGCuGggcugGGCCGGGGU-CGCCg -3'
miRNA:   3'- uuGC-GUUUCG-Ca----CCGGUCUCAaGUGG- -5'
2628 3' -52.9 NC_001491.2 + 56101 0.67 0.9344
Target:  5'- -gUGCAccGCgGUGGCCGG-GUgCACCc -3'
miRNA:   3'- uuGCGUuuCG-CACCGGUCuCAaGUGG- -5'
2628 3' -52.9 NC_001491.2 + 10444 0.67 0.932847
Target:  5'- gGACGCAGAGCGcuacugGGCCgcgcuacucaacauGGcGggCGCCg -3'
miRNA:   3'- -UUGCGUUUCGCa-----CCGG--------------UCuCaaGUGG- -5'
2628 3' -52.9 NC_001491.2 + 4098 0.68 0.922472
Target:  5'- cGCGCGGAGCGUGGaugaacuucuggCAGAacugCGCCa -3'
miRNA:   3'- uUGCGUUUCGCACCg-----------GUCUcaa-GUGG- -5'
2628 3' -52.9 NC_001491.2 + 2634 0.68 0.917828
Target:  5'- -cCGCGGAGUGUGGCagucuccgCGGGGaacgCGCCu -3'
miRNA:   3'- uuGCGUUUCGCACCG--------GUCUCaa--GUGG- -5'
2628 3' -52.9 NC_001491.2 + 1282 0.68 0.905506
Target:  5'- cACGcCGGGGCucgGGCCGGGGUgcucaacCACCa -3'
miRNA:   3'- uUGC-GUUUCGca-CCGGUCUCAa------GUGG- -5'
2628 3' -52.9 NC_001491.2 + 28819 0.68 0.898967
Target:  5'- -cCGUggGGCauggcugGGCCGGGGU-CGCCg -3'
miRNA:   3'- uuGCGuuUCGca-----CCGGUCUCAaGUGG- -5'
2628 3' -52.9 NC_001491.2 + 61795 0.69 0.892181
Target:  5'- --gGCAagcAAGCG-GGCCAGGGUggacguuccCACCu -3'
miRNA:   3'- uugCGU---UUCGCaCCGGUCUCAa--------GUGG- -5'
2628 3' -52.9 NC_001491.2 + 93109 0.69 0.861862
Target:  5'- uGACGCAaacgaugAAGCGUGGUguGGGcgCAUg -3'
miRNA:   3'- -UUGCGU-------UUCGCACCGguCUCaaGUGg -5'
2628 3' -52.9 NC_001491.2 + 74715 0.7 0.854693
Target:  5'- --gGCGAGucGCGUGGCCAGcGGcgCAUCg -3'
miRNA:   3'- uugCGUUU--CGCACCGGUC-UCaaGUGG- -5'
2628 3' -52.9 NC_001491.2 + 48535 0.71 0.793423
Target:  5'- cGugGUGGAGC-UGGCCAG-GUgCACCg -3'
miRNA:   3'- -UugCGUUUCGcACCGGUCuCAaGUGG- -5'
2628 3' -52.9 NC_001491.2 + 76765 0.71 0.77438
Target:  5'- uACGCAcgucugcGUGUGGCCAGGGUUauccaaauaACCa -3'
miRNA:   3'- uUGCGUuu-----CGCACCGGUCUCAAg--------UGG- -5'
2628 3' -52.9 NC_001491.2 + 89038 0.72 0.744822
Target:  5'- uGCGCAAAGuUGUGGCCAGcGUUguCa -3'
miRNA:   3'- uUGCGUUUC-GCACCGGUCuCAAguGg -5'
2628 3' -52.9 NC_001491.2 + 114079 0.72 0.724572
Target:  5'- uGACGCAAAGUGuUGGCgAGGGagguaauaUUUACCu -3'
miRNA:   3'- -UUGCGUUUCGC-ACCGgUCUC--------AAGUGG- -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.