miRNA display CGI


Results 1 - 20 of 36 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
19201 5' -59.1 NC_004684.1 + 35357 1.1 0.000468
Target:  5'- uGGACGCGGUGCCAGCUGUGGGCGUUCc -3'
miRNA:   3'- -CCUGCGCCACGGUCGACACCCGCAAG- -5'
19201 5' -59.1 NC_004684.1 + 39446 0.73 0.221987
Target:  5'- cGACGUaccacGGUGCCAGCUccGGGCGg-- -3'
miRNA:   3'- cCUGCG-----CCACGGUCGAcaCCCGCaag -5'
19201 5' -59.1 NC_004684.1 + 19382 0.73 0.227678
Target:  5'- aGGACacCGcUGUCAugguGCUGUGGGCGUUCa -3'
miRNA:   3'- -CCUGc-GCcACGGU----CGACACCCGCAAG- -5'
19201 5' -59.1 NC_004684.1 + 59827 0.72 0.239429
Target:  5'- uGGCGCGGUGCCGG-UGUaGGCGa-- -3'
miRNA:   3'- cCUGCGCCACGGUCgACAcCCGCaag -5'
19201 5' -59.1 NC_004684.1 + 9016 0.72 0.271028
Target:  5'- -cGCGCGGUGCCGuGCg--GGGCGg-- -3'
miRNA:   3'- ccUGCGCCACGGU-CGacaCCCGCaag -5'
19201 5' -59.1 NC_004684.1 + 58770 0.71 0.277737
Target:  5'- aGGAUcgGCGGUGCCGGUgcaccGGGCuuGUUCg -3'
miRNA:   3'- -CCUG--CGCCACGGUCGaca--CCCG--CAAG- -5'
19201 5' -59.1 NC_004684.1 + 47708 0.7 0.360312
Target:  5'- uGGCGCGGuUGCCAuGUguugucuccuuuUGUGGGUGUg- -3'
miRNA:   3'- cCUGCGCC-ACGGU-CG------------ACACCCGCAag -5'
19201 5' -59.1 NC_004684.1 + 33866 0.69 0.397818
Target:  5'- aGGAUcguucggccuaccagGCGGUGCgGGCggugccgGUGGGCGc-- -3'
miRNA:   3'- -CCUG---------------CGCCACGgUCGa------CACCCGCaag -5'
19201 5' -59.1 NC_004684.1 + 47406 0.69 0.402236
Target:  5'- aGGACcacCGGUGCCuGCUggaggugGUGGGgGUUg -3'
miRNA:   3'- -CCUGc--GCCACGGuCGA-------CACCCgCAAg -5'
19201 5' -59.1 NC_004684.1 + 37193 0.69 0.403123
Target:  5'- cGACGCGcGcgGCCAGCUGcUGGuguGCGUg- -3'
miRNA:   3'- cCUGCGC-Ca-CGGUCGAC-ACC---CGCAag -5'
19201 5' -59.1 NC_004684.1 + 28917 0.69 0.412064
Target:  5'- uGACGcCGGUGCCuGCcuUGUcGGCGUgaUCg -3'
miRNA:   3'- cCUGC-GCCACGGuCG--ACAcCCGCA--AG- -5'
19201 5' -59.1 NC_004684.1 + 10140 0.68 0.439607
Target:  5'- cGGGcCGaCGGUGCCGcccGCccagGUgGGGCGUUUg -3'
miRNA:   3'- -CCU-GC-GCCACGGU---CGa---CA-CCCGCAAG- -5'
19201 5' -59.1 NC_004684.1 + 6157 0.68 0.449019
Target:  5'- cGACgGCGGcgGCCAGC-GUGcGGCGg-- -3'
miRNA:   3'- cCUG-CGCCa-CGGUCGaCAC-CCGCaag -5'
19201 5' -59.1 NC_004684.1 + 55828 0.68 0.457584
Target:  5'- uGGAacuCGCGGUaGCC-GCUGUgguugcgGGGCGggUCg -3'
miRNA:   3'- -CCU---GCGCCA-CGGuCGACA-------CCCGCa-AG- -5'
19201 5' -59.1 NC_004684.1 + 52235 0.68 0.458541
Target:  5'- cGugGCGGcggcgGCCAGCUGcgcgcuGGCGUg- -3'
miRNA:   3'- cCugCGCCa----CGGUCGACac----CCGCAag -5'
19201 5' -59.1 NC_004684.1 + 48981 0.68 0.458541
Target:  5'- cGGGCGCgucGGUGCCcuGCUGgccGGGCc--- -3'
miRNA:   3'- -CCUGCG---CCACGGu-CGACa--CCCGcaag -5'
19201 5' -59.1 NC_004684.1 + 8496 0.68 0.468169
Target:  5'- gGGACGgcgagaCGGUGCCGuGCUGggauUGuGGCGUg- -3'
miRNA:   3'- -CCUGC------GCCACGGU-CGAC----AC-CCGCAag -5'
19201 5' -59.1 NC_004684.1 + 24500 0.68 0.468169
Target:  5'- aGGugGCGGUcucgguGCCAGaggccGGGCGUg- -3'
miRNA:   3'- -CCugCGCCA------CGGUCgaca-CCCGCAag -5'
19201 5' -59.1 NC_004684.1 + 65759 0.67 0.477901
Target:  5'- cGGGCGuUGGccGCCGcGCgccgGUGGGCGcgCg -3'
miRNA:   3'- -CCUGC-GCCa-CGGU-CGa---CACCCGCaaG- -5'
19201 5' -59.1 NC_004684.1 + 24122 0.67 0.477901
Target:  5'- aGGACGUGGUGCgCGGCgacaUGGcCGUg- -3'
miRNA:   3'- -CCUGCGCCACG-GUCGac--ACCcGCAag -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.