miRNA display CGI


Results 1 - 20 of 72 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
13005 3' -56.8 NC_003387.1 + 356 0.76 0.180146
Target:  5'- -cGCGCGgucgaucuGCGCGAgCGGUUCCG-CGCc -3'
miRNA:   3'- guCGCGC--------UGCGCUaGCCAAGGCaGCG- -5'
13005 3' -56.8 NC_003387.1 + 383 0.69 0.493183
Target:  5'- gCGGCGaauGAUGCGA-CGGaaCCGaUCGCg -3'
miRNA:   3'- -GUCGCg--CUGCGCUaGCCaaGGC-AGCG- -5'
13005 3' -56.8 NC_003387.1 + 881 0.66 0.651635
Target:  5'- gCGGCaGCGACGcCGGUCaGGaUCUucugcagcauGUCGCu -3'
miRNA:   3'- -GUCG-CGCUGC-GCUAG-CCaAGG----------CAGCG- -5'
13005 3' -56.8 NC_003387.1 + 2004 0.66 0.655937
Target:  5'- uGGcCGUGACGCuGGcccugcUCGGUgccgccgacggccgCCGUCGCc -3'
miRNA:   3'- gUC-GCGCUGCG-CU------AGCCAa-------------GGCAGCG- -5'
13005 3' -56.8 NC_003387.1 + 2838 0.67 0.619324
Target:  5'- aCGGcCGCGACGcCGAcgacaugaucgUCGGUgagGUCGCc -3'
miRNA:   3'- -GUC-GCGCUGC-GCU-----------AGCCAaggCAGCG- -5'
13005 3' -56.8 NC_003387.1 + 3600 0.67 0.619324
Target:  5'- aGGCGCGACGgGugacagCGGgugCgCGUCGa -3'
miRNA:   3'- gUCGCGCUGCgCua----GCCaa-G-GCAGCg -5'
13005 3' -56.8 NC_003387.1 + 3836 0.69 0.473203
Target:  5'- uCAGgGCGGCGCGGUaggCGGcgCCGaCGa -3'
miRNA:   3'- -GUCgCGCUGCGCUA---GCCaaGGCaGCg -5'
13005 3' -56.8 NC_003387.1 + 4497 0.67 0.594604
Target:  5'- gGGCGCGACaCGAucgugcgggucaccUCGGccgCCGcCGCc -3'
miRNA:   3'- gUCGCGCUGcGCU--------------AGCCaa-GGCaGCG- -5'
13005 3' -56.8 NC_003387.1 + 4566 0.66 0.683789
Target:  5'- -uGCGCGaccGCGCGGgccUCGGUggCG-CGCu -3'
miRNA:   3'- guCGCGC---UGCGCU---AGCCAagGCaGCG- -5'
13005 3' -56.8 NC_003387.1 + 5147 0.71 0.354669
Target:  5'- gGGCGCucGGCGcCGGUCGGUgcagucaaUCCGUaUGCg -3'
miRNA:   3'- gUCGCG--CUGC-GCUAGCCA--------AGGCA-GCG- -5'
13005 3' -56.8 NC_003387.1 + 6850 0.66 0.645177
Target:  5'- gAGCGCGAcCGCucagggcgccaacaaGAcgcCGGUcgCCGUCGUg -3'
miRNA:   3'- gUCGCGCU-GCG---------------CUa--GCCAa-GGCAGCG- -5'
13005 3' -56.8 NC_003387.1 + 7811 0.66 0.630095
Target:  5'- cCAGCccgGCGACGCGAUaCGGauaUG-CGCg -3'
miRNA:   3'- -GUCG---CGCUGCGCUA-GCCaagGCaGCG- -5'
13005 3' -56.8 NC_003387.1 + 9725 0.66 0.640869
Target:  5'- uCAGCGCGuACG-GGUCGGcgUCaagGUCGg -3'
miRNA:   3'- -GUCGCGC-UGCgCUAGCCa-AGg--CAGCg -5'
13005 3' -56.8 NC_003387.1 + 11395 0.66 0.68379
Target:  5'- uCGGCGCcacgcuGGcCGCGAUCGGccccgaggugCUGUCGUc -3'
miRNA:   3'- -GUCGCG------CU-GCGCUAGCCaa--------GGCAGCG- -5'
13005 3' -56.8 NC_003387.1 + 11564 0.66 0.630096
Target:  5'- -uGCG-GugGCGAUCGGcaCCaaggcguacggcGUCGCg -3'
miRNA:   3'- guCGCgCugCGCUAGCCaaGG------------CAGCG- -5'
13005 3' -56.8 NC_003387.1 + 11884 0.73 0.292845
Target:  5'- gAGCGCGucGCGCacGAUCGGcgCCGUCu- -3'
miRNA:   3'- gUCGCGC--UGCG--CUAGCCaaGGCAGcg -5'
13005 3' -56.8 NC_003387.1 + 12560 0.68 0.513541
Target:  5'- gGGCuCGACGaCGAUCGGgccgCCGacggugUCGCc -3'
miRNA:   3'- gUCGcGCUGC-GCUAGCCaa--GGC------AGCG- -5'
13005 3' -56.8 NC_003387.1 + 12709 0.68 0.513541
Target:  5'- -cGCGCGAgcgccCGCGGggcucuaGGUgCCGUCGUa -3'
miRNA:   3'- guCGCGCU-----GCGCUag-----CCAaGGCAGCG- -5'
13005 3' -56.8 NC_003387.1 + 14452 0.67 0.597821
Target:  5'- -cGCGC-ACGC-AUgGGUUCCGUUGg -3'
miRNA:   3'- guCGCGcUGCGcUAgCCAAGGCAGCg -5'
13005 3' -56.8 NC_003387.1 + 14665 0.7 0.396845
Target:  5'- gCGGCGCu-CGCucagccaccgcccGAUCGGggcgCCGUCGCc -3'
miRNA:   3'- -GUCGCGcuGCG-------------CUAGCCaa--GGCAGCG- -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.