miRNA display CGI


Results 1 - 20 of 69 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
14006 3' -57.3 NC_003521.1 + 11556 0.67 0.89286
Target:  5'- -aCGcCUCCGGCGC-CGUCgugCGCCg- -3'
miRNA:   3'- ucGCuGAGGCUGUGaGCAGa--GCGGag -5'
14006 3' -57.3 NC_003521.1 + 14404 0.67 0.905208
Target:  5'- cGGCGugUC--GCGCUCGgagaUCGCCUa -3'
miRNA:   3'- -UCGCugAGgcUGUGAGCag--AGCGGAg -5'
14006 3' -57.3 NC_003521.1 + 16506 0.67 0.916694
Target:  5'- gAGCacgGGCUgCGGCGCUCGgCUCGgCUg -3'
miRNA:   3'- -UCG---CUGAgGCUGUGAGCaGAGCgGAg -5'
14006 3' -57.3 NC_003521.1 + 16736 0.68 0.879672
Target:  5'- cGGCGACcgCCGGCGCgcgCGcC-CGCCg- -3'
miRNA:   3'- -UCGCUGa-GGCUGUGa--GCaGaGCGGag -5'
14006 3' -57.3 NC_003521.1 + 26920 0.7 0.776154
Target:  5'- cGCG-CUCCaGACACgcucgCGaCUCGCCUUc -3'
miRNA:   3'- uCGCuGAGG-CUGUGa----GCaGAGCGGAG- -5'
14006 3' -57.3 NC_003521.1 + 27773 0.69 0.822505
Target:  5'- gAGCGcggaggaagaaaccuACUCCGGCccGCUCGgccggCUCGCC-Cg -3'
miRNA:   3'- -UCGC---------------UGAGGCUG--UGAGCa----GAGCGGaG- -5'
14006 3' -57.3 NC_003521.1 + 28417 0.67 0.904012
Target:  5'- -aCGcCUCCGACaaccuggGCUUccacaccuccgugGUCUCGCCUCa -3'
miRNA:   3'- ucGCuGAGGCUG-------UGAG-------------CAGAGCGGAG- -5'
14006 3' -57.3 NC_003521.1 + 34213 0.69 0.827389
Target:  5'- gGGCGGCguagaCGGCGCcCGUgUCGCCg- -3'
miRNA:   3'- -UCGCUGag---GCUGUGaGCAgAGCGGag -5'
14006 3' -57.3 NC_003521.1 + 36818 0.69 0.803264
Target:  5'- cGGCgGACUCgGGCaugaGCUCGUCguccaugucguccuaCGCCUCg -3'
miRNA:   3'- -UCG-CUGAGgCUG----UGAGCAGa--------------GCGGAG- -5'
14006 3' -57.3 NC_003521.1 + 40788 0.73 0.623419
Target:  5'- cGGCGACUCCGG-ACUCccggcgcgGUCagcuauUCGCCUCg -3'
miRNA:   3'- -UCGCUGAGGCUgUGAG--------CAG------AGCGGAG- -5'
14006 3' -57.3 NC_003521.1 + 40938 0.67 0.886369
Target:  5'- gAGCGccaucuuaUCUGaACACgaugUCGUCUUGCCUCg -3'
miRNA:   3'- -UCGCug------AGGC-UGUG----AGCAGAGCGGAG- -5'
14006 3' -57.3 NC_003521.1 + 46454 0.67 0.886369
Target:  5'- cGGgGGCUggUCGGC-CUCGUCgUCGuCCUCg -3'
miRNA:   3'- -UCgCUGA--GGCUGuGAGCAG-AGC-GGAG- -5'
14006 3' -57.3 NC_003521.1 + 47538 0.68 0.879672
Target:  5'- cGcCGACUCCGACGCcCGUCcCGgCa- -3'
miRNA:   3'- uC-GCUGAGGCUGUGaGCAGaGCgGag -5'
14006 3' -57.3 NC_003521.1 + 55035 0.75 0.517214
Target:  5'- cGGCGGCUCCGAgAgacgCGUCUUGCgCUCc -3'
miRNA:   3'- -UCGCUGAGGCUgUga--GCAGAGCG-GAG- -5'
14006 3' -57.3 NC_003521.1 + 64534 0.69 0.827389
Target:  5'- cGCGACgacgCCGACGCcCGUCUgcUGCUgcUCa -3'
miRNA:   3'- uCGCUGa---GGCUGUGaGCAGA--GCGG--AG- -5'
14006 3' -57.3 NC_003521.1 + 69975 0.71 0.730134
Target:  5'- cGCGGagaagCCGACGCgCGUCUCGUCg- -3'
miRNA:   3'- uCGCUga---GGCUGUGaGCAGAGCGGag -5'
14006 3' -57.3 NC_003521.1 + 72159 0.66 0.932281
Target:  5'- cAGgGAcCUCCGGCGC-CGUCggcaUGcCCUCg -3'
miRNA:   3'- -UCgCU-GAGGCUGUGaGCAGa---GC-GGAG- -5'
14006 3' -57.3 NC_003521.1 + 74202 0.71 0.730134
Target:  5'- cGCGGC-CCGACGC-CGUCUucUGCCa- -3'
miRNA:   3'- uCGCUGaGGCUGUGaGCAGA--GCGGag -5'
14006 3' -57.3 NC_003521.1 + 74717 0.66 0.937037
Target:  5'- cAGCGGCUCCcuGCucuccuGCUCGUCgUCgGUCUCc -3'
miRNA:   3'- -UCGCUGAGGc-UG------UGAGCAG-AG-CGGAG- -5'
14006 3' -57.3 NC_003521.1 + 76873 0.68 0.843238
Target:  5'- cGGCGuccGCggCCGAgACUCcucCUCGCCUCu -3'
miRNA:   3'- -UCGC---UGa-GGCUgUGAGca-GAGCGGAG- -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.