miRNA display CGI


Results 1 - 20 of 40 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
23148 3' -61.7 NC_005178.1 + 16353 0.66 0.285528
Target:  5'- cUCACCAGCCaGaCCAGCgagucGGGcgGCg- -3'
miRNA:   3'- -AGUGGUCGGaCcGGUCG-----CCCuaCGgu -5'
23148 3' -61.7 NC_005178.1 + 8897 0.66 0.285528
Target:  5'- aCAuCCAGaCCcugGGCCAGCaGGAUcgGCCc -3'
miRNA:   3'- aGU-GGUC-GGa--CCGGUCGcCCUA--CGGu -5'
23148 3' -61.7 NC_005178.1 + 31706 0.66 0.285528
Target:  5'- gUAgCGGCCUGGCUugagGGCGuaauGGcgGCCGu -3'
miRNA:   3'- aGUgGUCGGACCGG----UCGC----CCuaCGGU- -5'
23148 3' -61.7 NC_005178.1 + 20274 0.66 0.285528
Target:  5'- cCACCAGCCuuUGGCCucCaGGAUcgGCCGc -3'
miRNA:   3'- aGUGGUCGG--ACCGGucGcCCUA--CGGU- -5'
23148 3' -61.7 NC_005178.1 + 13103 0.66 0.271446
Target:  5'- aCAUCAGCgCUGGCCAccGCuauGGaGGUGCUc -3'
miRNA:   3'- aGUGGUCG-GACCGGU--CG---CC-CUACGGu -5'
23148 3' -61.7 NC_005178.1 + 15296 0.66 0.265293
Target:  5'- -gGCCAGCCUGGCggucggcuUGGCGGuaguugcggcuuugcGUGCCAu -3'
miRNA:   3'- agUGGUCGGACCG--------GUCGCCc--------------UACGGU- -5'
23148 3' -61.7 NC_005178.1 + 35392 0.66 0.264616
Target:  5'- aCACCAGCgagggccaaCUGGCCccGGCGcuGGccGCCAc -3'
miRNA:   3'- aGUGGUCG---------GACCGG--UCGC--CCuaCGGU- -5'
23148 3' -61.7 NC_005178.1 + 20900 0.66 0.264616
Target:  5'- cUCGCCAuuGgCUGG-CAGCGGGAUucCCAg -3'
miRNA:   3'- -AGUGGU--CgGACCgGUCGCCCUAc-GGU- -5'
23148 3' -61.7 NC_005178.1 + 24606 0.66 0.251377
Target:  5'- gUCACCAgGCC-GGCCAGCaccuGGcgcGCCAc -3'
miRNA:   3'- -AGUGGU-CGGaCCGGUCGc---CCua-CGGU- -5'
23148 3' -61.7 NC_005178.1 + 5965 0.66 0.251377
Target:  5'- -gACCAGguCCaGGCCGGCGGcGGuacUGCCu -3'
miRNA:   3'- agUGGUC--GGaCCGGUCGCC-CU---ACGGu -5'
23148 3' -61.7 NC_005178.1 + 5538 0.66 0.251377
Target:  5'- gUCGCCuGCCUGcGCC--UGGGcgGCUAc -3'
miRNA:   3'- -AGUGGuCGGAC-CGGucGCCCuaCGGU- -5'
23148 3' -61.7 NC_005178.1 + 2813 0.66 0.251377
Target:  5'- gUCGCCGauGCCc-GCCAG-GGGGUGCUg -3'
miRNA:   3'- -AGUGGU--CGGacCGGUCgCCCUACGGu -5'
23148 3' -61.7 NC_005178.1 + 17138 0.67 0.244964
Target:  5'- uUCGCgCAGCUUGGCCAGguuggucgccUGGGcguccaggGCCGg -3'
miRNA:   3'- -AGUG-GUCGGACCGGUC----------GCCCua------CGGU- -5'
23148 3' -61.7 NC_005178.1 + 27467 0.67 0.238688
Target:  5'- gCAUCAGCCUGGaCCAGaa-GAUcGCCGa -3'
miRNA:   3'- aGUGGUCGGACC-GGUCgccCUA-CGGU- -5'
23148 3' -61.7 NC_005178.1 + 13042 0.67 0.238688
Target:  5'- -gGCCAGCCUGGCC-----GAUGCCu -3'
miRNA:   3'- agUGGUCGGACCGGucgccCUACGGu -5'
23148 3' -61.7 NC_005178.1 + 12107 0.67 0.220663
Target:  5'- -gGCgGGCCUGGCCGaUGGGcgcGCCGc -3'
miRNA:   3'- agUGgUCGGACCGGUcGCCCua-CGGU- -5'
23148 3' -61.7 NC_005178.1 + 36192 0.68 0.209301
Target:  5'- -gGCCAGUggcuggacggagCUGGUaGGCGGGAUGgCCGa -3'
miRNA:   3'- agUGGUCG------------GACCGgUCGCCCUAC-GGU- -5'
23148 3' -61.7 NC_005178.1 + 22266 0.68 0.203811
Target:  5'- cCGCCAGgCUGGCCcgccaggcGGCGGGcgaugaaGCCc -3'
miRNA:   3'- aGUGGUCgGACCGG--------UCGCCCua-----CGGu -5'
23148 3' -61.7 NC_005178.1 + 9320 0.68 0.203811
Target:  5'- gCAgCGGCCUGGaUAGCGGcGgcGCCGc -3'
miRNA:   3'- aGUgGUCGGACCgGUCGCC-CuaCGGU- -5'
23148 3' -61.7 NC_005178.1 + 28984 0.68 0.203811
Target:  5'- -gGCCGGCUcGGCCuGCGGcAUGaCCAa -3'
miRNA:   3'- agUGGUCGGaCCGGuCGCCcUAC-GGU- -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.