miRNA display CGI


Results 1 - 20 of 47 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
22936 3' -47.8 NC_005137.2 + 99238 0.68 0.996287
Target:  5'- aUUGUUUUGGGCGCGcgcccCGuUGCcacgGGCACa -3'
miRNA:   3'- cGAUAAAACCUGCGCu----GC-ACG----UUGUG- -5'
22936 3' -47.8 NC_005137.2 + 100038 0.7 0.982265
Target:  5'- cGCggucc--GACGCGGCGcGCGGCGCg -3'
miRNA:   3'- -CGauaaaacCUGCGCUGCaCGUUGUG- -5'
22936 3' -47.8 NC_005137.2 + 33858 0.69 0.989354
Target:  5'- cGCUAUUUUGaagcgaauauugaGCGCGAUugcguugcguuuacgGUGCGACGCu -3'
miRNA:   3'- -CGAUAAAACc------------UGCGCUG---------------CACGUUGUG- -5'
22936 3' -47.8 NC_005137.2 + 77757 0.69 0.989354
Target:  5'- cGCggg-UUGGACGCuauGACGUuGCAgaauuGCGCg -3'
miRNA:   3'- -CGauaaAACCUGCG---CUGCA-CGU-----UGUG- -5'
22936 3' -47.8 NC_005137.2 + 38654 0.69 0.993037
Target:  5'- cGCUGggca-GGCGCG-CGuUGCGGCACa -3'
miRNA:   3'- -CGAUaaaacCUGCGCuGC-ACGUUGUG- -5'
22936 3' -47.8 NC_005137.2 + 122416 0.69 0.993037
Target:  5'- aGCUGUUaa-GACGCGGguuuUGcUGCAGCGCg -3'
miRNA:   3'- -CGAUAAaacCUGCGCU----GC-ACGUUGUG- -5'
22936 3' -47.8 NC_005137.2 + 69257 0.68 0.994868
Target:  5'- gGCUAUgaaacUGGACgGCGugcGCGgucGCGGCGCg -3'
miRNA:   3'- -CGAUAaa---ACCUG-CGC---UGCa--CGUUGUG- -5'
22936 3' -47.8 NC_005137.2 + 13991 0.68 0.994868
Target:  5'- cGCUAUUggcccgacgUGGAuCGgGACGUGUuuuGCAa -3'
miRNA:   3'- -CGAUAAa--------ACCU-GCgCUGCACGu--UGUg -5'
22936 3' -47.8 NC_005137.2 + 100071 0.68 0.994868
Target:  5'- uGCU---UUGuGcCGCGGCGcGCGGCACg -3'
miRNA:   3'- -CGAuaaAAC-CuGCGCUGCaCGUUGUG- -5'
22936 3' -47.8 NC_005137.2 + 129100 0.71 0.972103
Target:  5'- uGCUGg--UGGG-GUgGugGUGCAACACa -3'
miRNA:   3'- -CGAUaaaACCUgCG-CugCACGUUGUG- -5'
22936 3' -47.8 NC_005137.2 + 46636 0.72 0.958296
Target:  5'- cGCcAUggUGGACaGCGGCGcuaaggGCAGCGCc -3'
miRNA:   3'- -CGaUAaaACCUG-CGCUGCa-----CGUUGUG- -5'
22936 3' -47.8 NC_005137.2 + 25632 0.72 0.958296
Target:  5'- --aAUUUUGGAUG-GGCGUGUcGCGCa -3'
miRNA:   3'- cgaUAAAACCUGCgCUGCACGuUGUG- -5'
22936 3' -47.8 NC_005137.2 + 48769 0.8 0.640914
Target:  5'- cGCgaucgUUGGACGCGGCGccgcacagcgugUGCGGCACu -3'
miRNA:   3'- -CGauaa-AACCUGCGCUGC------------ACGUUGUG- -5'
22936 3' -47.8 NC_005137.2 + 110422 0.73 0.918194
Target:  5'- aGCUGgcaacGGGCGCGACGgugaGCGuGCACa -3'
miRNA:   3'- -CGAUaaaa-CCUGCGCUGCa---CGU-UGUG- -5'
22936 3' -47.8 NC_005137.2 + 64893 0.73 0.922398
Target:  5'- aGCgg-UUUGGACGCGGauuaugagcguuuuUGUGCAAUAUc -3'
miRNA:   3'- -CGauaAAACCUGCGCU--------------GCACGUUGUG- -5'
22936 3' -47.8 NC_005137.2 + 57323 0.73 0.924158
Target:  5'- uGCaGUUUuaaaUGGGCGCGACG-GCAAUucGCg -3'
miRNA:   3'- -CGaUAAA----ACCUGCGCUGCaCGUUG--UG- -5'
22936 3' -47.8 NC_005137.2 + 24393 0.73 0.929848
Target:  5'- uGCUGU--UGGACGCGGCGU-CAGgcCGCc -3'
miRNA:   3'- -CGAUAaaACCUGCGCUGCAcGUU--GUG- -5'
22936 3' -47.8 NC_005137.2 + 115733 0.73 0.929848
Target:  5'- aCUAg--UGGACGCcaAgGUGCAACGCa -3'
miRNA:   3'- cGAUaaaACCUGCGc-UgCACGUUGUG- -5'
22936 3' -47.8 NC_005137.2 + 2478 0.73 0.940408
Target:  5'- cGCUAUUUau-GCGCcGCGUGCGGCAUg -3'
miRNA:   3'- -CGAUAAAaccUGCGcUGCACGUUGUG- -5'
22936 3' -47.8 NC_005137.2 + 112447 0.72 0.945279
Target:  5'- gGCcg--UUGGACGCGGCG-GCAGgAUg -3'
miRNA:   3'- -CGauaaAACCUGCGCUGCaCGUUgUG- -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.