miRNA display CGI


Results 1 - 18 of 18 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
12411 3' -55.2 NC_003324.1 + 26747 0.66 0.721098
Target:  5'- uGCAGcaucUUCCGUGAaCACGGuguuUGCCGu- -3'
miRNA:   3'- -UGUC----AAGGCGCUgGUGCCu---ACGGUua -5'
12411 3' -55.2 NC_003324.1 + 25907 0.66 0.721098
Target:  5'- uGCAGgUCCuGCaauACCucCGGAUGCCAGg -3'
miRNA:   3'- -UGUCaAGG-CGc--UGGu-GCCUACGGUUa -5'
12411 3' -55.2 NC_003324.1 + 42472 0.66 0.721098
Target:  5'- uGCGGacCCGCGACCA-GGAUaCCGc- -3'
miRNA:   3'- -UGUCaaGGCGCUGGUgCCUAcGGUua -5'
12411 3' -55.2 NC_003324.1 + 39725 0.66 0.699435
Target:  5'- uGCGGUUCUGCaGCCACcacauGGcgGCCu-- -3'
miRNA:   3'- -UGUCAAGGCGcUGGUG-----CCuaCGGuua -5'
12411 3' -55.2 NC_003324.1 + 52460 0.66 0.699435
Target:  5'- gACuuugCCGCGGCCagACGGAUGCa--- -3'
miRNA:   3'- -UGucaaGGCGCUGG--UGCCUACGguua -5'
12411 3' -55.2 NC_003324.1 + 1153 0.66 0.688498
Target:  5'- aGCGGUaCCGCaGCCGCcaGGAcuuggUGCCGGUa -3'
miRNA:   3'- -UGUCAaGGCGcUGGUG--CCU-----ACGGUUA- -5'
12411 3' -55.2 NC_003324.1 + 30369 0.67 0.66647
Target:  5'- gGCAuGUUCgGCGGCUugGGcgaccGUGCCu-- -3'
miRNA:   3'- -UGU-CAAGgCGCUGGugCC-----UACGGuua -5'
12411 3' -55.2 NC_003324.1 + 17530 0.67 0.643201
Target:  5'- uGCAGUUCCcgcgucgGCGAUCGgaaccaaaggucCGGcAUGCCGAUg -3'
miRNA:   3'- -UGUCAAGG-------CGCUGGU------------GCC-UACGGUUA- -5'
12411 3' -55.2 NC_003324.1 + 2653 0.67 0.611013
Target:  5'- uGCAGuUUCCGUcGCCAUGGAauggaacggcgUGCCGu- -3'
miRNA:   3'- -UGUC-AAGGCGcUGGUGCCU-----------ACGGUua -5'
12411 3' -55.2 NC_003324.1 + 5353 0.68 0.58889
Target:  5'- aACGGcgCCccgacGCuGACCAUGGAUGUCGGUg -3'
miRNA:   3'- -UGUCaaGG-----CG-CUGGUGCCUACGGUUA- -5'
12411 3' -55.2 NC_003324.1 + 32486 0.68 0.57788
Target:  5'- gGCAGccUCgGCGAUCACGG-UGUCGAc -3'
miRNA:   3'- -UGUCa-AGgCGCUGGUGCCuACGGUUa -5'
12411 3' -55.2 NC_003324.1 + 16329 0.69 0.513052
Target:  5'- cGCAGcggUCCGCGACgGCGu-UGCCGu- -3'
miRNA:   3'- -UGUCa--AGGCGCUGgUGCcuACGGUua -5'
12411 3' -55.2 NC_003324.1 + 21164 0.7 0.471524
Target:  5'- cGCAGca-CGCG-CCGCGGcgGCCGAc -3'
miRNA:   3'- -UGUCaagGCGCuGGUGCCuaCGGUUa -5'
12411 3' -55.2 NC_003324.1 + 2356 0.71 0.431767
Target:  5'- uCAGUUCU-CGACUGCGGAUGCgAAa -3'
miRNA:   3'- uGUCAAGGcGCUGGUGCCUACGgUUa -5'
12411 3' -55.2 NC_003324.1 + 40268 0.71 0.431767
Target:  5'- uGCGG-UCCGgGGCUugGCGGGUGCCu-- -3'
miRNA:   3'- -UGUCaAGGCgCUGG--UGCCUACGGuua -5'
12411 3' -55.2 NC_003324.1 + 53481 0.72 0.34999
Target:  5'- gUAGgcgCCGUGACCGCG-AUGCCAGa -3'
miRNA:   3'- uGUCaa-GGCGCUGGUGCcUACGGUUa -5'
12411 3' -55.2 NC_003324.1 + 18260 0.73 0.294412
Target:  5'- gACAGagCCGCGACCgcugACGGAaucgGCCGAc -3'
miRNA:   3'- -UGUCaaGGCGCUGG----UGCCUa---CGGUUa -5'
12411 3' -55.2 NC_003324.1 + 3486 1.05 0.001881
Target:  5'- cACAGUUCCGCGACCACGGAUGCCAAUu -3'
miRNA:   3'- -UGUCAAGGCGCUGGUGCCUACGGUUA- -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.