miRNA display CGI


Results 1 - 20 of 64 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
11661 3' -54 NC_003102.1 + 135091 0.66 0.950376
Target:  5'- gGGCGACGACGgcggugGCUGguUCGACGcguuUGAu -3'
miRNA:   3'- -UCGCUGUUGCag----CGGC--AGCUGCu---ACU- -5'
11661 3' -54 NC_003102.1 + 134384 0.71 0.785288
Target:  5'- cGGCGGCGGCGgucgcaagaauuuggCGCCGcCGGCGGa-- -3'
miRNA:   3'- -UCGCUGUUGCa--------------GCGGCaGCUGCUacu -5'
11661 3' -54 NC_003102.1 + 133868 0.69 0.882405
Target:  5'- cAGCGACGACGcggccgagcugcaUCGCCuuGcCGuCGGUGAg -3'
miRNA:   3'- -UCGCUGUUGC-------------AGCGG--CaGCuGCUACU- -5'
11661 3' -54 NC_003102.1 + 131157 0.73 0.686396
Target:  5'- cAGCGGC-ACGUagCGCCGUCGGC--UGAg -3'
miRNA:   3'- -UCGCUGuUGCA--GCGGCAGCUGcuACU- -5'
11661 3' -54 NC_003102.1 + 130895 0.68 0.917069
Target:  5'- uGGCGACGGCGUCGCUguguguagcauuuggGauauugggcgugaUCGACGAa-- -3'
miRNA:   3'- -UCGCUGUUGCAGCGG---------------C-------------AGCUGCUacu -5'
11661 3' -54 NC_003102.1 + 128887 0.7 0.820197
Target:  5'- uGGUGAUggUGUCGUCGgc-ACGAUGAa -3'
miRNA:   3'- -UCGCUGuuGCAGCGGCagcUGCUACU- -5'
11661 3' -54 NC_003102.1 + 128727 0.66 0.965232
Target:  5'- cGGCGACGGCGUUGUUaauUCGACaaauUGAu -3'
miRNA:   3'- -UCGCUGUUGCAGCGGc--AGCUGcu--ACU- -5'
11661 3' -54 NC_003102.1 + 127679 0.67 0.921056
Target:  5'- aAGCGGCGcaauCGUCGCaacaGUCG-CGAUa- -3'
miRNA:   3'- -UCGCUGUu---GCAGCGg---CAGCuGCUAcu -5'
11661 3' -54 NC_003102.1 + 122885 0.76 0.513526
Target:  5'- uGCGuauGCGACGcUUGCCGUUGACGGUGc -3'
miRNA:   3'- uCGC---UGUUGC-AGCGGCAGCUGCUACu -5'
11661 3' -54 NC_003102.1 + 120005 0.66 0.965232
Target:  5'- cGGCuaaauACAACG-CuUCGUCGACGAUGGc -3'
miRNA:   3'- -UCGc----UGUUGCaGcGGCAGCUGCUACU- -5'
11661 3' -54 NC_003102.1 + 119716 0.66 0.950376
Target:  5'- --aGACGACGaCGaCGaCGACGAUGAa -3'
miRNA:   3'- ucgCUGUUGCaGCgGCaGCUGCUACU- -5'
11661 3' -54 NC_003102.1 + 119059 0.66 0.958256
Target:  5'- uAGCGAUAGuCGUCGUgaUCG-CGGUGGc -3'
miRNA:   3'- -UCGCUGUU-GCAGCGgcAGCuGCUACU- -5'
11661 3' -54 NC_003102.1 + 114990 0.72 0.746316
Target:  5'- cGGCGACAGCgGUgGCgGU-GGCGGUGGu -3'
miRNA:   3'- -UCGCUGUUG-CAgCGgCAgCUGCUACU- -5'
11661 3' -54 NC_003102.1 + 113736 0.67 0.946088
Target:  5'- gAGCGGCcgccACGUCGauuCgGUCGACGAc-- -3'
miRNA:   3'- -UCGCUGu---UGCAGC---GgCAGCUGCUacu -5'
11661 3' -54 NC_003102.1 + 112985 0.71 0.775036
Target:  5'- --aGAgAACGUCGUCGUCGucgugGCGGUGGu -3'
miRNA:   3'- ucgCUgUUGCAGCGGCAGC-----UGCUACU- -5'
11661 3' -54 NC_003102.1 + 111878 0.71 0.775036
Target:  5'- --aGAC-AUGUCGCCGcUGACGAUGGc -3'
miRNA:   3'- ucgCUGuUGCAGCGGCaGCUGCUACU- -5'
11661 3' -54 NC_003102.1 + 110193 0.83 0.209599
Target:  5'- uGCGACAGCGgacaCGCCGUCGAC-AUGAu -3'
miRNA:   3'- uCGCUGUUGCa---GCGGCAGCUGcUACU- -5'
11661 3' -54 NC_003102.1 + 108700 0.67 0.931792
Target:  5'- uGGCGuCAuucugauCGUCGCCGUUGGCa---- -3'
miRNA:   3'- -UCGCuGUu------GCAGCGGCAGCUGcuacu -5'
11661 3' -54 NC_003102.1 + 108646 0.68 0.896698
Target:  5'- uGGCGuCAuucugauCGUCGCCGUUGACa---- -3'
miRNA:   3'- -UCGCuGUu------GCAGCGGCAGCUGcuacu -5'
11661 3' -54 NC_003102.1 + 107876 0.7 0.828745
Target:  5'- cGGUGGaagagaAACGUUGCUGUCGuCGAUGc -3'
miRNA:   3'- -UCGCUg-----UUGCAGCGGCAGCuGCUACu -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.