miRNA display CGI


Results 1 - 20 of 30 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
12809 3' -54.8 NC_003387.1 + 49296 0.68 0.593019
Target:  5'- gGUGCUcgCCGAGCAcGCCGa-GGGCAc -3'
miRNA:   3'- -CGCGGa-GGCUUGUaCGGCaaUCCGUc -5'
12809 3' -54.8 NC_003387.1 + 36563 0.7 0.455204
Target:  5'- -aGCUggCGAACAUGCUGgcGGGCAa -3'
miRNA:   3'- cgCGGagGCUUGUACGGCaaUCCGUc -5'
12809 3' -54.8 NC_003387.1 + 51122 0.77 0.180384
Target:  5'- cGCGCCcggCCGAACAUGCCa--GGGCGc -3'
miRNA:   3'- -CGCGGa--GGCUUGUACGGcaaUCCGUc -5'
12809 3' -54.8 NC_003387.1 + 22968 0.66 0.735703
Target:  5'- gGCGCC-CCGGucauCGUGUCGggcGGCGc -3'
miRNA:   3'- -CGCGGaGGCUu---GUACGGCaauCCGUc -5'
12809 3' -54.8 NC_003387.1 + 24784 0.66 0.703451
Target:  5'- aGCGCCccgaCCGAGCccGCCcccgAGGCGc -3'
miRNA:   3'- -CGCGGa---GGCUUGuaCGGcaa-UCCGUc -5'
12809 3' -54.8 NC_003387.1 + 151 0.66 0.701275
Target:  5'- cGCGCCgCCGAGCugggccugcugGCCGac-GGCAa -3'
miRNA:   3'- -CGCGGaGGCUUGua---------CGGCaauCCGUc -5'
12809 3' -54.8 NC_003387.1 + 50969 0.68 0.571024
Target:  5'- aGCGCCcCCGAGCcgauagcgGCCGg-GGGCGu -3'
miRNA:   3'- -CGCGGaGGCUUGua------CGGCaaUCCGUc -5'
12809 3' -54.8 NC_003387.1 + 2041 0.66 0.725043
Target:  5'- cCGCCgucgCCGAGCugGCCGcgguGGCGGc -3'
miRNA:   3'- cGCGGa---GGCUUGuaCGGCaau-CCGUC- -5'
12809 3' -54.8 NC_003387.1 + 17338 0.67 0.648432
Target:  5'- gGCGCUUCU--GCGUGCCGcaAGGuCGGc -3'
miRNA:   3'- -CGCGGAGGcuUGUACGGCaaUCC-GUC- -5'
12809 3' -54.8 NC_003387.1 + 30711 0.68 0.602965
Target:  5'- uGCGCCUgcggggcgcucagCCGGGCAggugacccgGCuCGUcGGGCAGc -3'
miRNA:   3'- -CGCGGA-------------GGCUUGUa--------CG-GCAaUCCGUC- -5'
12809 3' -54.8 NC_003387.1 + 49579 0.68 0.615149
Target:  5'- uGCGCCcgcugCCGGGCGgugGCCu---GGCAGu -3'
miRNA:   3'- -CGCGGa----GGCUUGUa--CGGcaauCCGUC- -5'
12809 3' -54.8 NC_003387.1 + 33930 0.66 0.746258
Target:  5'- cCGCC-CCGAGC-UGUgGUUccccgacaaaGGGCAGu -3'
miRNA:   3'- cGCGGaGGCUUGuACGgCAA----------UCCGUC- -5'
12809 3' -54.8 NC_003387.1 + 13147 0.66 0.725043
Target:  5'- uGCGCagcgCGAACAgGCCGUcgAGGuCAGg -3'
miRNA:   3'- -CGCGgag-GCUUGUaCGGCAa-UCC-GUC- -5'
12809 3' -54.8 NC_003387.1 + 30072 0.66 0.714288
Target:  5'- aGgGCCagCGAGCAUGCgcucagucguCGgcGGGCGGc -3'
miRNA:   3'- -CgCGGagGCUUGUACG----------GCaaUCCGUC- -5'
12809 3' -54.8 NC_003387.1 + 9574 0.69 0.517055
Target:  5'- uCGCCgCCGAACGUGCgGU---GCAGg -3'
miRNA:   3'- cGCGGaGGCUUGUACGgCAaucCGUC- -5'
12809 3' -54.8 NC_003387.1 + 1147 0.69 0.560097
Target:  5'- gGCGCCUgCGuGCAUGCgCGgugcuuagcGGCAGc -3'
miRNA:   3'- -CGCGGAgGCuUGUACG-GCaau------CCGUC- -5'
12809 3' -54.8 NC_003387.1 + 8285 0.68 0.582
Target:  5'- aGCGCCUCgu-GCGcGUCGgcGGGCAGc -3'
miRNA:   3'- -CGCGGAGgcuUGUaCGGCaaUCCGUC- -5'
12809 3' -54.8 NC_003387.1 + 49180 0.68 0.604072
Target:  5'- aGCGCCU--GAGCA-GCCGccugGGGCGGc -3'
miRNA:   3'- -CGCGGAggCUUGUaCGGCaa--UCCGUC- -5'
12809 3' -54.8 NC_003387.1 + 28906 0.66 0.714288
Target:  5'- gGCGCCgggccaccgcCCGAGCccuucaccuUGUCGUcAGGCGGu -3'
miRNA:   3'- -CGCGGa---------GGCUUGu--------ACGGCAaUCCGUC- -5'
12809 3' -54.8 NC_003387.1 + 18340 0.68 0.626241
Target:  5'- cGCGCCguuUCCGuugucGCCGUUGGGUu- -3'
miRNA:   3'- -CGCGG---AGGCuuguaCGGCAAUCCGuc -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.