miRNA display CGI


Results 1 - 20 of 21 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
23112 3' -56.5 NC_005178.1 + 16983 0.66 0.484112
Target:  5'- cGAGAGgucagCGCC-GCgACCUGGCCc- -3'
miRNA:   3'- uUUCUCaa---GCGGuUGgUGGGCCGGuu -5'
23112 3' -56.5 NC_005178.1 + 9422 0.66 0.462993
Target:  5'- --uGGGcgcCGCCAucggugccACCGCCCaGGCCAAa -3'
miRNA:   3'- uuuCUCaa-GCGGU--------UGGUGGG-CCGGUU- -5'
23112 3' -56.5 NC_005178.1 + 29380 0.66 0.452616
Target:  5'- cGAGGAuUUCGCgAACgACCUGGUCGu -3'
miRNA:   3'- -UUUCUcAAGCGgUUGgUGGGCCGGUu -5'
23112 3' -56.5 NC_005178.1 + 26948 0.66 0.450556
Target:  5'- -cAGGGUggauugcugcggUGCCGGCuCGCUCGGCCGGu -3'
miRNA:   3'- uuUCUCAa-----------GCGGUUG-GUGGGCCGGUU- -5'
23112 3' -56.5 NC_005178.1 + 2178 0.66 0.442367
Target:  5'- -uGGuGUUCGUCAGCaGCCgGGCCu- -3'
miRNA:   3'- uuUCuCAAGCGGUUGgUGGgCCGGuu -5'
23112 3' -56.5 NC_005178.1 + 5435 0.67 0.432251
Target:  5'- -cGGAugUCG-CGACgGCCCGGCCGAc -3'
miRNA:   3'- uuUCUcaAGCgGUUGgUGGGCCGGUU- -5'
23112 3' -56.5 NC_005178.1 + 13389 0.67 0.422271
Target:  5'- ------aUCGCCAGCCACCaGGUCGg -3'
miRNA:   3'- uuucucaAGCGGUUGGUGGgCCGGUu -5'
23112 3' -56.5 NC_005178.1 + 8677 0.67 0.402733
Target:  5'- cAAGAcGUUCGCCAuguGCCGCaucgaUGGCCu- -3'
miRNA:   3'- uUUCU-CAAGCGGU---UGGUGg----GCCGGuu -5'
23112 3' -56.5 NC_005178.1 + 17637 0.67 0.393181
Target:  5'- --cGAGUccagCGCCGGCaagaCCGGCCAGg -3'
miRNA:   3'- uuuCUCAa---GCGGUUGgug-GGCCGGUU- -5'
23112 3' -56.5 NC_005178.1 + 5603 0.67 0.393181
Target:  5'- ---cGGaaCGCCGACCGCUCGGCUc- -3'
miRNA:   3'- uuucUCaaGCGGUUGGUGGGCCGGuu -5'
23112 3' -56.5 NC_005178.1 + 17103 0.68 0.365425
Target:  5'- cAAGGGGUUCGCCAuuACCuggaaCUGGCaCGAu -3'
miRNA:   3'- -UUUCUCAAGCGGU--UGGug---GGCCG-GUU- -5'
23112 3' -56.5 NC_005178.1 + 10072 0.68 0.356478
Target:  5'- -uGGAGcuaCGCCGACCauaugGCCCGGCgCAu -3'
miRNA:   3'- uuUCUCaa-GCGGUUGG-----UGGGCCG-GUu -5'
23112 3' -56.5 NC_005178.1 + 2618 0.68 0.356478
Target:  5'- -uGGAGaUUUGCCGgaucgAUCACgCCGGCCAGu -3'
miRNA:   3'- uuUCUC-AAGCGGU-----UGGUG-GGCCGGUU- -5'
23112 3' -56.5 NC_005178.1 + 28571 0.69 0.330572
Target:  5'- -cGGGGgcgUCGCCGGCauuCCCGcGCCAu -3'
miRNA:   3'- uuUCUCa--AGCGGUUGgu-GGGC-CGGUu -5'
23112 3' -56.5 NC_005178.1 + 22585 0.69 0.306079
Target:  5'- cAGGAGUUCGacaugagCGACCAcacCCUGGCCAu -3'
miRNA:   3'- uUUCUCAAGCg------GUUGGU---GGGCCGGUu -5'
23112 3' -56.5 NC_005178.1 + 35450 0.7 0.283001
Target:  5'- ----cGggCGCCAAgguaagccguacCCGCCCGGCCAGu -3'
miRNA:   3'- uuucuCaaGCGGUU------------GGUGGGCCGGUU- -5'
23112 3' -56.5 NC_005178.1 + 21003 0.7 0.283001
Target:  5'- --cGGGUUCGCCGugggcggcagcACCGCCacCGGCCu- -3'
miRNA:   3'- uuuCUCAAGCGGU-----------UGGUGG--GCCGGuu -5'
23112 3' -56.5 NC_005178.1 + 16797 0.7 0.283001
Target:  5'- cAGGuGcUgGCCAGCCugCCGGCCc- -3'
miRNA:   3'- uUUCuCaAgCGGUUGGugGGCCGGuu -5'
23112 3' -56.5 NC_005178.1 + 23203 0.7 0.261323
Target:  5'- cAGGucgUCGCCGACCACCaGGUCAGg -3'
miRNA:   3'- uUUCucaAGCGGUUGGUGGgCCGGUU- -5'
23112 3' -56.5 NC_005178.1 + 32578 0.73 0.167785
Target:  5'- ---cAGUUCGUCAucACCGCaCCGGCCGAc -3'
miRNA:   3'- uuucUCAAGCGGU--UGGUG-GGCCGGUU- -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.