miRNA display CGI


Results 1 - 20 of 200 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
12892 3' -59.7 NC_003387.1 + 11397 0.65 0.511726
Target:  5'- gGCGCCacgcuggccgcgaUCGGCCccGAgGuGCUG-UCGUCg -3'
miRNA:   3'- -UGCGG-------------AGCCGG--CUgCuCGACuAGCGG- -5'
12892 3' -59.7 NC_003387.1 + 4393 0.65 0.5097
Target:  5'- aACGCCgUCGacuacuggcagaacGUCGAcgcCGAGCUGGgcaaggcguUCGCCg -3'
miRNA:   3'- -UGCGG-AGC--------------CGGCU---GCUCGACU---------AGCGG- -5'
12892 3' -59.7 NC_003387.1 + 41363 0.66 0.502636
Target:  5'- aAUGCaa-GGCCGAcgcCGAGCgUGAggccgagCGCCg -3'
miRNA:   3'- -UGCGgagCCGGCU---GCUCG-ACUa------GCGG- -5'
12892 3' -59.7 NC_003387.1 + 3466 0.66 0.502636
Target:  5'- uCGCUgcgCGG-CGGCGAGgUGAaaUCGCUu -3'
miRNA:   3'- uGCGGa--GCCgGCUGCUCgACU--AGCGG- -5'
12892 3' -59.7 NC_003387.1 + 24840 0.66 0.502636
Target:  5'- uGCGCUgucugCGGCCGgguGCGugguGGCUGGcUCGaCCu -3'
miRNA:   3'- -UGCGGa----GCCGGC---UGC----UCGACU-AGC-GG- -5'
12892 3' -59.7 NC_003387.1 + 27893 0.66 0.499621
Target:  5'- -aGCC-CGGCCagccgcccgaguacGcCGAGCUGcugCGCCa -3'
miRNA:   3'- ugCGGaGCCGG--------------CuGCUCGACua-GCGG- -5'
12892 3' -59.7 NC_003387.1 + 21798 0.66 0.492619
Target:  5'- cCGCggCGGCCagcucGGCGAGC-GA-CGCCg -3'
miRNA:   3'- uGCGgaGCCGG-----CUGCUCGaCUaGCGG- -5'
12892 3' -59.7 NC_003387.1 + 21415 0.66 0.492619
Target:  5'- aACGCCcccggCGGcCCGGCGcagcagcuacGGCUGGUCaacuaacccgGCCc -3'
miRNA:   3'- -UGCGGa----GCC-GGCUGC----------UCGACUAG----------CGG- -5'
12892 3' -59.7 NC_003387.1 + 10110 0.66 0.492619
Target:  5'- cGCGcCCUCGGCgCGcuuCG-GCUcGUCGUCg -3'
miRNA:   3'- -UGC-GGAGCCG-GCu--GCuCGAcUAGCGG- -5'
12892 3' -59.7 NC_003387.1 + 22920 0.66 0.492619
Target:  5'- uGCGCCUUGcgcGCCGAuCGcguuGGC-GAUCGCg -3'
miRNA:   3'- -UGCGGAGC---CGGCU-GC----UCGaCUAGCGg -5'
12892 3' -59.7 NC_003387.1 + 24721 0.66 0.492619
Target:  5'- gGCGaCCUCGcGCagcagGGCGAgguGCgucgGGUCGCCc -3'
miRNA:   3'- -UGC-GGAGC-CGg----CUGCU---CGa---CUAGCGG- -5'
12892 3' -59.7 NC_003387.1 + 10240 0.66 0.482694
Target:  5'- gACGCgaUGaGCCGcgccgagcGCGGGCUcaaGGUCGCCc -3'
miRNA:   3'- -UGCGgaGC-CGGC--------UGCUCGA---CUAGCGG- -5'
12892 3' -59.7 NC_003387.1 + 51319 0.66 0.482694
Target:  5'- gGCGCCUCGcacaacuucgaGCgCGAcccCGAcccGCUGAgCGCCg -3'
miRNA:   3'- -UGCGGAGC-----------CG-GCU---GCU---CGACUaGCGG- -5'
12892 3' -59.7 NC_003387.1 + 1761 0.66 0.482694
Target:  5'- -aGCC-CGG-CGGCGGcGCUGG-CGCCc -3'
miRNA:   3'- ugCGGaGCCgGCUGCU-CGACUaGCGG- -5'
12892 3' -59.7 NC_003387.1 + 45717 0.66 0.482694
Target:  5'- gGCGCCaggCGGCCGAUcuucGCc--UCGCCg -3'
miRNA:   3'- -UGCGGa--GCCGGCUGcu--CGacuAGCGG- -5'
12892 3' -59.7 NC_003387.1 + 51122 0.66 0.482694
Target:  5'- cGCGCC-CGGCCGAacaugccaGGGCg---CGUCu -3'
miRNA:   3'- -UGCGGaGCCGGCUg-------CUCGacuaGCGG- -5'
12892 3' -59.7 NC_003387.1 + 21808 0.66 0.482694
Target:  5'- aGCGCCUCGGCgacgauuuccaCGaccaggucggcGCGGGCcGcgcUCGCCg -3'
miRNA:   3'- -UGCGGAGCCG-----------GC-----------UGCUCGaCu--AGCGG- -5'
12892 3' -59.7 NC_003387.1 + 25988 0.66 0.482694
Target:  5'- cGCGCUggUGGUCGGUGAGCg---CGCCg -3'
miRNA:   3'- -UGCGGa-GCCGGCUGCUCGacuaGCGG- -5'
12892 3' -59.7 NC_003387.1 + 37998 0.66 0.482694
Target:  5'- gUGCC-CGGCgGugccgagccacGCGGGCagcgGGUCGCCc -3'
miRNA:   3'- uGCGGaGCCGgC-----------UGCUCGa---CUAGCGG- -5'
12892 3' -59.7 NC_003387.1 + 45290 0.66 0.482694
Target:  5'- cACGCCacgaUCGGCCG-CGGGUcGAacggGCCg -3'
miRNA:   3'- -UGCGG----AGCCGGCuGCUCGaCUag--CGG- -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.