miRNA display CGI


Results 1 - 20 of 33 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
18287 3' -59 NC_004681.1 + 74136 0.66 0.597169
Target:  5'- -aCGCgcacgGAGCGcUCAGCUCAG-CCCAg -3'
miRNA:   3'- ggGCGa----CUCGCuGGUUGGGUCaGGGU- -5'
18287 3' -59 NC_004681.1 + 74028 0.67 0.529358
Target:  5'- gCCCGCUGGGCugagcugagcgcuccGugCGcguACCCAGUaaaUCCGg -3'
miRNA:   3'- -GGGCGACUCG---------------CugGU---UGGGUCA---GGGU- -5'
18287 3' -59 NC_004681.1 + 68672 0.69 0.457001
Target:  5'- gCCCGCUGucgcuccaGGCGuGCCAGCaagUAGUCCUg -3'
miRNA:   3'- -GGGCGAC--------UCGC-UGGUUGg--GUCAGGGu -5'
18287 3' -59 NC_004681.1 + 67715 0.73 0.240756
Target:  5'- gCCGCUG-GCGcuaccgcaugGCCAACCUGGUCUCGu -3'
miRNA:   3'- gGGCGACuCGC----------UGGUUGGGUCAGGGU- -5'
18287 3' -59 NC_004681.1 + 65898 0.66 0.6285
Target:  5'- cCUCGCgcaugauccUGGGCGACCG-CaaGGUCCCu -3'
miRNA:   3'- -GGGCG---------ACUCGCUGGUuGggUCAGGGu -5'
18287 3' -59 NC_004681.1 + 64949 0.66 0.586769
Target:  5'- aCCaGCUGGgugaggucGCGGCgCAGguaCCAGUCCCAc -3'
miRNA:   3'- gGG-CGACU--------CGCUG-GUUg--GGUCAGGGU- -5'
18287 3' -59 NC_004681.1 + 62372 0.66 0.638959
Target:  5'- aUCGCaUGAGCGA---GCCCAuUCCCGg -3'
miRNA:   3'- gGGCG-ACUCGCUgguUGGGUcAGGGU- -5'
18287 3' -59 NC_004681.1 + 51836 0.7 0.411229
Target:  5'- gCCCGCgccgGGGCGGCCGccgacgACCaccaGGUUCCc -3'
miRNA:   3'- -GGGCGa---CUCGCUGGU------UGGg---UCAGGGu -5'
18287 3' -59 NC_004681.1 + 50453 0.66 0.597169
Target:  5'- aCCaCGUcgUGGGCGAcgcccaccCCGACCguGUCCUg -3'
miRNA:   3'- -GG-GCG--ACUCGCU--------GGUUGGguCAGGGu -5'
18287 3' -59 NC_004681.1 + 48803 0.67 0.535422
Target:  5'- aCCGC-GGGCGACUcgaagccgAACUCGG-CCCAu -3'
miRNA:   3'- gGGCGaCUCGCUGG--------UUGGGUCaGGGU- -5'
18287 3' -59 NC_004681.1 + 47112 0.69 0.420156
Target:  5'- gCCGCUGAGCGACgAgaacGCCgAGggCCGc -3'
miRNA:   3'- gGGCGACUCGCUGgU----UGGgUCagGGU- -5'
18287 3' -59 NC_004681.1 + 39784 0.66 0.6285
Target:  5'- gCCCGCcGcGCGACCAucGCC---UCCCAc -3'
miRNA:   3'- -GGGCGaCuCGCUGGU--UGGgucAGGGU- -5'
18287 3' -59 NC_004681.1 + 35945 0.66 0.618043
Target:  5'- --aGCaUGAGCGACCG-CCCA--CCCAu -3'
miRNA:   3'- gggCG-ACUCGCUGGUuGGGUcaGGGU- -5'
18287 3' -59 NC_004681.1 + 34627 0.66 0.616997
Target:  5'- gCCC-UUGGGUGAcacguuCCAgccguuguuguuuGCCCAGUCCCu -3'
miRNA:   3'- -GGGcGACUCGCU------GGU-------------UGGGUCAGGGu -5'
18287 3' -59 NC_004681.1 + 31119 0.66 0.596128
Target:  5'- gCCGCUGuccGCGuugcgcuugcACCAgucguaguugugcGCCCAGUCCa- -3'
miRNA:   3'- gGGCGACu--CGC----------UGGU-------------UGGGUCAGGgu -5'
18287 3' -59 NC_004681.1 + 29572 0.66 0.618043
Target:  5'- uCCCGgUGAgggacaggGUGACCGACUCAccgCCCGu -3'
miRNA:   3'- -GGGCgACU--------CGCUGGUUGGGUca-GGGU- -5'
18287 3' -59 NC_004681.1 + 29177 0.66 0.607596
Target:  5'- aCCC-CUGGGCGGCCAucaCAaUCCCu -3'
miRNA:   3'- -GGGcGACUCGCUGGUuggGUcAGGGu -5'
18287 3' -59 NC_004681.1 + 28602 0.67 0.525329
Target:  5'- aCCGCggGGGUGcCCGgggugagugugaGCCCAGcCCCGg -3'
miRNA:   3'- gGGCGa-CUCGCuGGU------------UGGGUCaGGGU- -5'
18287 3' -59 NC_004681.1 + 26964 0.7 0.36841
Target:  5'- gCCGCcauagguggcggUGGG-GACCGGCCCacugcGGUCCCAg -3'
miRNA:   3'- gGGCG------------ACUCgCUGGUUGGG-----UCAGGGU- -5'
18287 3' -59 NC_004681.1 + 25591 1.1 0.000645
Target:  5'- cCCCGCUGAGCGACCAACCCAGUCCCAc -3'
miRNA:   3'- -GGGCGACUCGCUGGUUGGGUCAGGGU- -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.