miRNA display CGI


Results 1 - 20 of 23 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
2757 3' -53.4 NC_001491.2 + 140181 0.66 0.967689
Target:  5'- cGCAcgcgGUCUcGCUGCCGCGcuccguGGGgGAc -3'
miRNA:   3'- -CGUuua-UAGGcCGACGGCGU------UCCgCU- -5'
2757 3' -53.4 NC_001491.2 + 125603 0.66 0.964418
Target:  5'- cCGGGgcggCC-GCUGCCGCGGcGGCGGc -3'
miRNA:   3'- cGUUUaua-GGcCGACGGCGUU-CCGCU- -5'
2757 3' -53.4 NC_001491.2 + 10814 0.66 0.960922
Target:  5'- aCAGAUAga-GGUgcaugaggGCCGCGAGGCa- -3'
miRNA:   3'- cGUUUAUaggCCGa-------CGGCGUUCCGcu -5'
2757 3' -53.4 NC_001491.2 + 81120 0.67 0.939893
Target:  5'- uGCGua-GUgCGGCgGCUGCGuAGGCGGc -3'
miRNA:   3'- -CGUuuaUAgGCCGaCGGCGU-UCCGCU- -5'
2757 3' -53.4 NC_001491.2 + 144325 0.67 0.934445
Target:  5'- uCAGAUAUCCaGGCUuCCGCGccgagcuccgccgAGGCa- -3'
miRNA:   3'- cGUUUAUAGG-CCGAcGGCGU-------------UCCGcu -5'
2757 3' -53.4 NC_001491.2 + 35317 0.67 0.929762
Target:  5'- gGCAAuggAUCCGGC-GCCGUAGucccuGGCc- -3'
miRNA:   3'- -CGUUua-UAGGCCGaCGGCGUU-----CCGcu -5'
2757 3' -53.4 NC_001491.2 + 138508 0.68 0.918629
Target:  5'- uGCugggGUCCGcGCUGCUGgCAucGGCGGc -3'
miRNA:   3'- -CGuuuaUAGGC-CGACGGC-GUu-CCGCU- -5'
2757 3' -53.4 NC_001491.2 + 46041 0.68 0.906496
Target:  5'- -gGAAUGUCCgcgGGC-GCCuGCGAgGGCGAa -3'
miRNA:   3'- cgUUUAUAGG---CCGaCGG-CGUU-CCGCU- -5'
2757 3' -53.4 NC_001491.2 + 45239 0.68 0.906496
Target:  5'- cGCAGAUuuggCCGGg-GCCGC--GGCGGg -3'
miRNA:   3'- -CGUUUAua--GGCCgaCGGCGuuCCGCU- -5'
2757 3' -53.4 NC_001491.2 + 45206 0.68 0.906496
Target:  5'- cGCAGAUuuggCCGGg-GCCGC--GGCGGg -3'
miRNA:   3'- -CGUUUAua--GGCCgaCGGCGuuCCGCU- -5'
2757 3' -53.4 NC_001491.2 + 45173 0.68 0.906496
Target:  5'- cGCAGAUuuggCCGGg-GCCGC--GGCGGg -3'
miRNA:   3'- -CGUUUAua--GGCCgaCGGCGuuCCGCU- -5'
2757 3' -53.4 NC_001491.2 + 45140 0.68 0.906496
Target:  5'- cGCAGAUuuggCCGGg-GCCGC--GGCGGg -3'
miRNA:   3'- -CGUUUAua--GGCCgaCGGCGuuCCGCU- -5'
2757 3' -53.4 NC_001491.2 + 45107 0.68 0.906496
Target:  5'- cGCAGAUuuggCCGGg-GCCGC--GGCGGg -3'
miRNA:   3'- -CGUUUAua--GGCCgaCGGCGuuCCGCU- -5'
2757 3' -53.4 NC_001491.2 + 79070 0.68 0.893378
Target:  5'- uGCGAggGUCUGGCUGuCCGgGGguuGGCGu -3'
miRNA:   3'- -CGUUuaUAGGCCGAC-GGCgUU---CCGCu -5'
2757 3' -53.4 NC_001491.2 + 116177 0.68 0.893378
Target:  5'- gGCGAGcccuucUCCGGCUccgcgGCCGCGgAGGgGAg -3'
miRNA:   3'- -CGUUUau----AGGCCGA-----CGGCGU-UCCgCU- -5'
2757 3' -53.4 NC_001491.2 + 144844 0.69 0.886458
Target:  5'- cGCug----CCGGCgGCCG-AGGGCGAc -3'
miRNA:   3'- -CGuuuauaGGCCGaCGGCgUUCCGCU- -5'
2757 3' -53.4 NC_001491.2 + 135957 0.69 0.879301
Target:  5'- -----aAUCCGGacCUGCCGCuagGGGCGu -3'
miRNA:   3'- cguuuaUAGGCC--GACGGCGu--UCCGCu -5'
2757 3' -53.4 NC_001491.2 + 118355 0.69 0.871914
Target:  5'- aGCGGcgGUCCuccuaccccggcGGCUGCCGCccagccGGCGu -3'
miRNA:   3'- -CGUUuaUAGG------------CCGACGGCGuu----CCGCu -5'
2757 3' -53.4 NC_001491.2 + 144725 0.69 0.871914
Target:  5'- ------uUCUGGCUGCCGUAcagcaggucGGGCGc -3'
miRNA:   3'- cguuuauAGGCCGACGGCGU---------UCCGCu -5'
2757 3' -53.4 NC_001491.2 + 121728 0.69 0.871163
Target:  5'- gGUGGAUAUCCcccugaacaagcGGUUGacgucccCCGCGAGGCGGu -3'
miRNA:   3'- -CGUUUAUAGG------------CCGAC-------GGCGUUCCGCU- -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.