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
7291 3' -52.7 NC_001900.1 + 11988 1.11 0.001384
Target:  5'- cGCUCAACGGUGACCCGAUCCUCAACGc -3'
miRNA:   3'- -CGAGUUGCCACUGGGCUAGGAGUUGC- -5'
7291 3' -52.7 NC_001900.1 + 32089 0.91 0.034018
Target:  5'- uGCUCAACGGcGAgCCGAUCCUCGACa -3'
miRNA:   3'- -CGAGUUGCCaCUgGGCUAGGAGUUGc -5'
7291 3' -52.7 NC_001900.1 + 6473 0.79 0.197438
Target:  5'- uGCUCGACgccccuGGUGACCUGAUCCaccggggagguggUCAGCGu -3'
miRNA:   3'- -CGAGUUG------CCACUGGGCUAGG-------------AGUUGC- -5'
7291 3' -52.7 NC_001900.1 + 25941 0.77 0.258358
Target:  5'- cGCUCAGCGGUGccuucuGCUCGAUCCggcACGg -3'
miRNA:   3'- -CGAGUUGCCAC------UGGGCUAGGaguUGC- -5'
7291 3' -52.7 NC_001900.1 + 6512 0.76 0.316872
Target:  5'- aGCUCGGCccgcUGGCCagccaGAUCCUCAACGg -3'
miRNA:   3'- -CGAGUUGcc--ACUGGg----CUAGGAGUUGC- -5'
7291 3' -52.7 NC_001900.1 + 4153 0.72 0.524432
Target:  5'- gGC-CGGCGGUGACCCcaaacaaCUCGGCGu -3'
miRNA:   3'- -CGaGUUGCCACUGGGcuag---GAGUUGC- -5'
7291 3' -52.7 NC_001900.1 + 31897 0.71 0.546056
Target:  5'- uCUCGACGGaaccGCUCGGucUCCUCGGCGg -3'
miRNA:   3'- cGAGUUGCCac--UGGGCU--AGGAGUUGC- -5'
7291 3' -52.7 NC_001900.1 + 15178 0.71 0.578993
Target:  5'- cGCUCGAccagcCGGUGGCuCCaGUCCaggUCGACGg -3'
miRNA:   3'- -CGAGUU-----GCCACUG-GGcUAGG---AGUUGC- -5'
7291 3' -52.7 NC_001900.1 + 44924 0.71 0.578993
Target:  5'- gGCUCGACGGUGGagaCCGcguugaCCggCAACGg -3'
miRNA:   3'- -CGAGUUGCCACUg--GGCua----GGa-GUUGC- -5'
7291 3' -52.7 NC_001900.1 + 5710 0.7 0.590073
Target:  5'- cGCUCGACGGUccaguaccaggcGGCaCCGAUgCCUgccCAGCGc -3'
miRNA:   3'- -CGAGUUGCCA------------CUG-GGCUA-GGA---GUUGC- -5'
7291 3' -52.7 NC_001900.1 + 12954 0.7 0.605645
Target:  5'- uCUCGACGGUGcccagguucagggucGCCUGAUCCgUC-ACGu -3'
miRNA:   3'- cGAGUUGCCAC---------------UGGGCUAGG-AGuUGC- -5'
7291 3' -52.7 NC_001900.1 + 15834 0.7 0.645834
Target:  5'- aGCUCGACGGUcacaucuucggaGAuCCCGAUCgU-GACGg -3'
miRNA:   3'- -CGAGUUGCCA------------CU-GGGCUAGgAgUUGC- -5'
7291 3' -52.7 NC_001900.1 + 19657 0.69 0.679216
Target:  5'- uGCUC-GCGGccGACCuUGAUCCgCAGCGu -3'
miRNA:   3'- -CGAGuUGCCa-CUGG-GCUAGGaGUUGC- -5'
7291 3' -52.7 NC_001900.1 + 878 0.69 0.701259
Target:  5'- aGCUCGAUGG-GcAUCCGcUCCUCGAa- -3'
miRNA:   3'- -CGAGUUGCCaC-UGGGCuAGGAGUUgc -5'
7291 3' -52.7 NC_001900.1 + 10253 0.69 0.701259
Target:  5'- gGCUCucuGCGGc--CCUGAUggCCUCAGCGg -3'
miRNA:   3'- -CGAGu--UGCCacuGGGCUA--GGAGUUGC- -5'
7291 3' -52.7 NC_001900.1 + 26745 0.68 0.712181
Target:  5'- cCUCu-CGGgGAUCCGGUCCUCGGg- -3'
miRNA:   3'- cGAGuuGCCaCUGGGCUAGGAGUUgc -5'
7291 3' -52.7 NC_001900.1 + 35059 0.68 0.723024
Target:  5'- gGCUCGACaacUGACCCG--CCUCGGCc -3'
miRNA:   3'- -CGAGUUGcc-ACUGGGCuaGGAGUUGc -5'
7291 3' -52.7 NC_001900.1 + 33749 0.68 0.733773
Target:  5'- aGCUCGuUGGcUGACUccaCGAugUCCUCGGCGu -3'
miRNA:   3'- -CGAGUuGCC-ACUGG---GCU--AGGAGUUGC- -5'
7291 3' -52.7 NC_001900.1 + 42049 0.68 0.754943
Target:  5'- cGCUCcaucgcgagucgGACGGcuucGGCCCGGacUCgCUCAACGu -3'
miRNA:   3'- -CGAG------------UUGCCa---CUGGGCU--AG-GAGUUGC- -5'
7291 3' -52.7 NC_001900.1 + 7105 0.67 0.765341
Target:  5'- uGCUCca-GGUuuucGAgCCGGUCCUCGAgGa -3'
miRNA:   3'- -CGAGuugCCA----CUgGGCUAGGAGUUgC- -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.