miRNA display CGI


Results 1 - 20 of 100 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
25959 3' -63.4 NC_005337.1 + 113160 0.66 0.578482
Target:  5'- cGCGGUgcgcugCGUGgcggCCGGCGUCCCguaCGACaUCg -3'
miRNA:   3'- -CGCCG------GUACg---GGCCGCAGGG---GCUG-AG- -5'
25959 3' -63.4 NC_005337.1 + 16013 0.66 0.578482
Target:  5'- gGCGuucGCCGgagugaugaUGCgCGGCGUCUCCucgGGCUCc -3'
miRNA:   3'- -CGC---CGGU---------ACGgGCCGCAGGGG---CUGAG- -5'
25959 3' -63.4 NC_005337.1 + 133165 0.66 0.568807
Target:  5'- uGCGGCUGcuCCCGGCGgcggcgcugCgCCGGCUg -3'
miRNA:   3'- -CGCCGGUacGGGCCGCa--------GgGGCUGAg -5'
25959 3' -63.4 NC_005337.1 + 133165 0.66 0.568807
Target:  5'- uGCGGCUGcuCCCGGCGgcggcgcugCgCCGGCUg -3'
miRNA:   3'- -CGCCGGUacGGGCCGCa--------GgGGCUGAg -5'
25959 3' -63.4 NC_005337.1 + 38764 0.66 0.568807
Target:  5'- gGCGaGCCgGUGCgCGGUGgagCCCGACg- -3'
miRNA:   3'- -CGC-CGG-UACGgGCCGCag-GGGCUGag -5'
25959 3' -63.4 NC_005337.1 + 19235 0.66 0.566877
Target:  5'- aCGGCCAUGCCCuggcaggGGCagaggaugcucuuGUCCgCgCGGCUg -3'
miRNA:   3'- cGCCGGUACGGG-------CCG-------------CAGG-G-GCUGAg -5'
25959 3' -63.4 NC_005337.1 + 119446 0.66 0.559173
Target:  5'- gGCGGaaAggacGCCCaccacGGCGUCCUCG-CUCa -3'
miRNA:   3'- -CGCCggUa---CGGG-----CCGCAGGGGCuGAG- -5'
25959 3' -63.4 NC_005337.1 + 76852 0.66 0.559173
Target:  5'- cGCGGUagAUGgaCgGGCGUCCggaCGGCUCg -3'
miRNA:   3'- -CGCCGg-UACg-GgCCGCAGGg--GCUGAG- -5'
25959 3' -63.4 NC_005337.1 + 6375 0.66 0.549585
Target:  5'- cCGGCUcgGCCCGcacGCGcUCgCCGGCg- -3'
miRNA:   3'- cGCCGGuaCGGGC---CGC-AGgGGCUGag -5'
25959 3' -63.4 NC_005337.1 + 120650 0.66 0.549585
Target:  5'- gGUGGCCcUGUCCcucggcGGCGaCgCCCGGCUg -3'
miRNA:   3'- -CGCCGGuACGGG------CCGCaG-GGGCUGAg -5'
25959 3' -63.4 NC_005337.1 + 53816 0.66 0.549585
Target:  5'- cGCGGaCCggucuGUGUCCGuG-GUCCUCGACUg -3'
miRNA:   3'- -CGCC-GG-----UACGGGC-CgCAGGGGCUGAg -5'
25959 3' -63.4 NC_005337.1 + 127534 0.66 0.540048
Target:  5'- aUGGCgAUGUacgguaccugCCGGCG-CCCCGugguCUCg -3'
miRNA:   3'- cGCCGgUACG----------GGCCGCaGGGGCu---GAG- -5'
25959 3' -63.4 NC_005337.1 + 86768 0.66 0.540048
Target:  5'- aUGGCCAUcUCCGGCGUCCgcaCgGGCg- -3'
miRNA:   3'- cGCCGGUAcGGGCCGCAGG---GgCUGag -5'
25959 3' -63.4 NC_005337.1 + 95787 0.66 0.530568
Target:  5'- uCGGCCA-GCUCGGCGacgcgcggCCCGGCg- -3'
miRNA:   3'- cGCCGGUaCGGGCCGCag------GGGCUGag -5'
25959 3' -63.4 NC_005337.1 + 133024 0.67 0.521149
Target:  5'- uGCGGCUgaucGCCCGGCucGUCguguacgggCCCGAuCUCc -3'
miRNA:   3'- -CGCCGGua--CGGGCCG--CAG---------GGGCU-GAG- -5'
25959 3' -63.4 NC_005337.1 + 57996 0.67 0.521149
Target:  5'- aUGGCCAUgaaccugcugcGCCCgGGCGUgCUCGGC-Ca -3'
miRNA:   3'- cGCCGGUA-----------CGGG-CCGCAgGGGCUGaG- -5'
25959 3' -63.4 NC_005337.1 + 74497 0.67 0.521149
Target:  5'- cGCGuGCCG-GCgCCGGCuguccuuuuuGUCCaCCGAgCUCg -3'
miRNA:   3'- -CGC-CGGUaCG-GGCCG----------CAGG-GGCU-GAG- -5'
25959 3' -63.4 NC_005337.1 + 51771 0.67 0.521149
Target:  5'- aCGGCC--GCCCcguGGCGuUCCCCGGgUg -3'
miRNA:   3'- cGCCGGuaCGGG---CCGC-AGGGGCUgAg -5'
25959 3' -63.4 NC_005337.1 + 17930 0.67 0.520211
Target:  5'- cGCgGGUCAUGgCCCGGCGcugCgCCCGcagcagccgcaccGCUCc -3'
miRNA:   3'- -CG-CCGGUAC-GGGCCGCa--G-GGGC-------------UGAG- -5'
25959 3' -63.4 NC_005337.1 + 9435 0.67 0.520211
Target:  5'- gGCGGCCAucugcgccucgaUGCCCGuGCGgagcaccUCCUCG-CUg -3'
miRNA:   3'- -CGCCGGU------------ACGGGC-CGC-------AGGGGCuGAg -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.