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
29960 3' -53.6 NC_006273.1 + 90796 0.66 0.989705
Target:  5'- aGCaGcCCCGACGUGGGGucgauaGCAGa--- -3'
miRNA:   3'- aCGcCaGGGCUGUACCUC------UGUCaaag -5'
29960 3' -53.6 NC_006273.1 + 147427 0.66 0.988341
Target:  5'- cGCGGcgUCCGGCGUcGGGGgugGCGGUcUUCu -3'
miRNA:   3'- aCGCCa-GGGCUGUA-CCUC---UGUCA-AAG- -5'
29960 3' -53.6 NC_006273.1 + 99501 0.66 0.988341
Target:  5'- uUGCGGUaCCgGugGUGGcGGCGGc--- -3'
miRNA:   3'- -ACGCCA-GGgCugUACCuCUGUCaaag -5'
29960 3' -53.6 NC_006273.1 + 87668 0.66 0.988341
Target:  5'- aGCuGGUCCCGAaCAggguguacgggUGGuGGCGGUg-- -3'
miRNA:   3'- aCG-CCAGGGCU-GU-----------ACCuCUGUCAaag -5'
29960 3' -53.6 NC_006273.1 + 192006 0.66 0.985198
Target:  5'- gGUGG-CCCGACAacgccaucaGGAGAUGGUggaUCa -3'
miRNA:   3'- aCGCCaGGGCUGUa--------CCUCUGUCAa--AG- -5'
29960 3' -53.6 NC_006273.1 + 55666 0.66 0.985198
Target:  5'- cUGCGuGUCgCGAC-UGG-GACAGUa-- -3'
miRNA:   3'- -ACGC-CAGgGCUGuACCuCUGUCAaag -5'
29960 3' -53.6 NC_006273.1 + 126980 0.66 0.985198
Target:  5'- cGUcGUaCCUGACGUGGAGACcgcGGUggCg -3'
miRNA:   3'- aCGcCA-GGGCUGUACCUCUG---UCAaaG- -5'
29960 3' -53.6 NC_006273.1 + 203097 0.66 0.985198
Target:  5'- gGCGGUCgCGAC--GGuGACGGUc-- -3'
miRNA:   3'- aCGCCAGgGCUGuaCCuCUGUCAaag -5'
29960 3' -53.6 NC_006273.1 + 227719 0.67 0.979323
Target:  5'- cGCGGUCuCUGAaggccaagacCAUGGAGauGCGGUUc- -3'
miRNA:   3'- aCGCCAG-GGCU----------GUACCUC--UGUCAAag -5'
29960 3' -53.6 NC_006273.1 + 168237 0.67 0.977024
Target:  5'- cGCGaUCUgGACGUGGAGACGc---- -3'
miRNA:   3'- aCGCcAGGgCUGUACCUCUGUcaaag -5'
29960 3' -53.6 NC_006273.1 + 166478 0.67 0.977024
Target:  5'- aGUGGUaCCgGugGUGGcGACGGUa-- -3'
miRNA:   3'- aCGCCA-GGgCugUACCuCUGUCAaag -5'
29960 3' -53.6 NC_006273.1 + 157307 0.67 0.977024
Target:  5'- gGCGGUggUGAC-UGGGGACGGUg-- -3'
miRNA:   3'- aCGCCAggGCUGuACCUCUGUCAaag -5'
29960 3' -53.6 NC_006273.1 + 101752 0.67 0.976784
Target:  5'- gGCGGUCgCCGgcgGCAUGGgcgcgucGGGCGGUc-- -3'
miRNA:   3'- aCGCCAG-GGC---UGUACC-------UCUGUCAaag -5'
29960 3' -53.6 NC_006273.1 + 68761 0.67 0.974543
Target:  5'- cGCGGg-UCGACAUGGuccAGGCGGUg-- -3'
miRNA:   3'- aCGCCagGGCUGUACC---UCUGUCAaag -5'
29960 3' -53.6 NC_006273.1 + 105528 0.67 0.971872
Target:  5'- aUGCGacacaGcCCCGACGUgccucgGGAGGCGGUgaugUCa -3'
miRNA:   3'- -ACGC-----CaGGGCUGUA------CCUCUGUCAa---AG- -5'
29960 3' -53.6 NC_006273.1 + 206126 0.67 0.969005
Target:  5'- cGgGGUgUCGGCGUGGgcacGGACAGgUUCc -3'
miRNA:   3'- aCgCCAgGGCUGUACC----UCUGUCaAAG- -5'
29960 3' -53.6 NC_006273.1 + 6981 0.68 0.961634
Target:  5'- cGCGGUCUCGauGCGUGauguuuaucccgguGGGACAGUg-- -3'
miRNA:   3'- aCGCCAGGGC--UGUAC--------------CUCUGUCAaag -5'
29960 3' -53.6 NC_006273.1 + 42323 0.68 0.95546
Target:  5'- aGCGG-CU--GCGUGGGGACAuGUUUCu -3'
miRNA:   3'- aCGCCaGGgcUGUACCUCUGU-CAAAG- -5'
29960 3' -53.6 NC_006273.1 + 170170 0.69 0.938372
Target:  5'- cGCGGUCgCGAUagGUGGAGACc----- -3'
miRNA:   3'- aCGCCAGgGCUG--UACCUCUGucaaag -5'
29960 3' -53.6 NC_006273.1 + 179001 0.7 0.917003
Target:  5'- cGCGGUCCCGcgauggagaaaacGCcggcGGAGACgacggcGGUUUCa -3'
miRNA:   3'- aCGCCAGGGC-------------UGua--CCUCUG------UCAAAG- -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.