miRNA display CGI


Results 1 - 20 of 97 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
19233 3' -54.7 NC_004684.1 + 8762 0.66 0.800547
Target:  5'- -aGGCCcaGCGCGGcACCAGcCGcCACg -3'
miRNA:   3'- caCCGGc-UGUGUCuUGGUCaGCuGUG- -5'
19233 3' -54.7 NC_004684.1 + 63166 0.66 0.800547
Target:  5'- -cGcGCCG-CGCAGgcgcAugCAGUCGugGCu -3'
miRNA:   3'- caC-CGGCuGUGUC----UugGUCAGCugUG- -5'
19233 3' -54.7 NC_004684.1 + 52755 0.66 0.800547
Target:  5'- cGUGGCCGcugGCGCAGuc---GUUGACGCc -3'
miRNA:   3'- -CACCGGC---UGUGUCuugguCAGCUGUG- -5'
19233 3' -54.7 NC_004684.1 + 41775 0.66 0.800547
Target:  5'- aGUGGgCG-UACGGAcgcgGCCAGgugcCGACGCc -3'
miRNA:   3'- -CACCgGCuGUGUCU----UGGUCa---GCUGUG- -5'
19233 3' -54.7 NC_004684.1 + 21865 0.66 0.800547
Target:  5'- -aGGCCG-CACAGGaaACCAG-CGAa-- -3'
miRNA:   3'- caCCGGCuGUGUCU--UGGUCaGCUgug -5'
19233 3' -54.7 NC_004684.1 + 31259 0.66 0.800547
Target:  5'- -cGGCCuccggGACACcuGGAACCGcaucGUCGGCGg -3'
miRNA:   3'- caCCGG-----CUGUG--UCUUGGU----CAGCUGUg -5'
19233 3' -54.7 NC_004684.1 + 43459 0.66 0.800547
Target:  5'- -gGGCgCGGCAgCAGGugCGG-CGGCAg -3'
miRNA:   3'- caCCG-GCUGU-GUCUugGUCaGCUGUg -5'
19233 3' -54.7 NC_004684.1 + 11834 0.66 0.800547
Target:  5'- -cGGCCaccgGGcCACGGcGGCCAG-CGGCGCg -3'
miRNA:   3'- caCCGG----CU-GUGUC-UUGGUCaGCUGUG- -5'
19233 3' -54.7 NC_004684.1 + 6450 0.66 0.800547
Target:  5'- uUGGCCGagGCGCAGGggaugaugACCAGcugggCGGCGg -3'
miRNA:   3'- cACCGGC--UGUGUCU--------UGGUCa----GCUGUg -5'
19233 3' -54.7 NC_004684.1 + 33588 0.66 0.800547
Target:  5'- --cGCCGACGCcGAACCGcUCGAUg- -3'
miRNA:   3'- cacCGGCUGUGuCUUGGUcAGCUGug -5'
19233 3' -54.7 NC_004684.1 + 37733 0.66 0.790892
Target:  5'- -cGGCCGcGCGCAGGAgCAcgucGUUGGCGg -3'
miRNA:   3'- caCCGGC-UGUGUCUUgGU----CAGCUGUg -5'
19233 3' -54.7 NC_004684.1 + 11950 0.66 0.790892
Target:  5'- uUGG-CGACAUAGAccACCGG-CGcACGCg -3'
miRNA:   3'- cACCgGCUGUGUCU--UGGUCaGC-UGUG- -5'
19233 3' -54.7 NC_004684.1 + 43253 0.66 0.790892
Target:  5'- -gGGCCGGagaGCAcGGCCAuGUCGcCGCg -3'
miRNA:   3'- caCCGGCUg--UGUcUUGGU-CAGCuGUG- -5'
19233 3' -54.7 NC_004684.1 + 19617 0.66 0.781074
Target:  5'- cUGGCCGACugAcgcacuACCGGg-GGCGCg -3'
miRNA:   3'- cACCGGCUGugUcu----UGGUCagCUGUG- -5'
19233 3' -54.7 NC_004684.1 + 20261 0.66 0.781074
Target:  5'- -cGGcCCGGCGCGuucccGGCCccuguGGUCGACACc -3'
miRNA:   3'- caCC-GGCUGUGUc----UUGG-----UCAGCUGUG- -5'
19233 3' -54.7 NC_004684.1 + 13005 0.66 0.775109
Target:  5'- gGUGGauuaugucccCCGACGCGcccgguuacgucgccGGGCCGGUCGGCu- -3'
miRNA:   3'- -CACC----------GGCUGUGU---------------CUUGGUCAGCUGug -5'
19233 3' -54.7 NC_004684.1 + 41583 0.66 0.771103
Target:  5'- cUGGCCGcCACccGGCCAGUUgGugACg -3'
miRNA:   3'- cACCGGCuGUGucUUGGUCAG-CugUG- -5'
19233 3' -54.7 NC_004684.1 + 7644 0.66 0.771103
Target:  5'- cGUGGCgGGCGUGGuGACCGgGUCGGCGg -3'
miRNA:   3'- -CACCGgCUGUGUC-UUGGU-CAGCUGUg -5'
19233 3' -54.7 NC_004684.1 + 8883 0.66 0.771103
Target:  5'- -cGGC--ACGCuGGACCgcAGUCGGCGCg -3'
miRNA:   3'- caCCGgcUGUGuCUUGG--UCAGCUGUG- -5'
19233 3' -54.7 NC_004684.1 + 60712 0.66 0.771103
Target:  5'- -aGGUCGACcuguGCAG-GCCAcucccguggcauGUCGACACc -3'
miRNA:   3'- caCCGGCUG----UGUCuUGGU------------CAGCUGUG- -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.