miRNA display CGI


Results 1 - 17 of 17 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
21872 5' -52.5 NC_004902.1 + 33398 0.66 0.786527
Target:  5'- gCCCUGuAUGguGGCAGcuGCAaagaccAUGCAgUa -3'
miRNA:   3'- -GGGAC-UACguCCGUU--CGU------UACGUgAc -5'
21872 5' -52.5 NC_004902.1 + 5588 0.66 0.776068
Target:  5'- --aUGGUGCGGGCG-GUGAUGUGCa- -3'
miRNA:   3'- gggACUACGUCCGUuCGUUACGUGac -5'
21872 5' -52.5 NC_004902.1 + 32369 0.66 0.776068
Target:  5'- uCCCUuugGCAGGUucugcaaauuuGGUAAUGCACUu -3'
miRNA:   3'- -GGGAcuaCGUCCGu----------UCGUUACGUGAc -5'
21872 5' -52.5 NC_004902.1 + 26865 0.66 0.754667
Target:  5'- gCCUGcaaggcuUGUAGGCcuGCAAucUGCACUc -3'
miRNA:   3'- gGGACu------ACGUCCGuuCGUU--ACGUGAc -5'
21872 5' -52.5 NC_004902.1 + 4710 0.67 0.732714
Target:  5'- cCUCUGGUGCA-GCAGGCA-UGCucCUa -3'
miRNA:   3'- -GGGACUACGUcCGUUCGUuACGu-GAc -5'
21872 5' -52.5 NC_004902.1 + 43829 0.67 0.732714
Target:  5'- aCCUGcUG-AGGCGuacgcAGCGGUGCGCg- -3'
miRNA:   3'- gGGACuACgUCCGU-----UCGUUACGUGac -5'
21872 5' -52.5 NC_004902.1 + 35729 0.67 0.732714
Target:  5'- uCUgUGAUccGUAGGCGccacagcgguGGCAguAUGCACUGa -3'
miRNA:   3'- -GGgACUA--CGUCCGU----------UCGU--UACGUGAC- -5'
21872 5' -52.5 NC_004902.1 + 4298 0.67 0.720443
Target:  5'- gCCCUGGcUGCGccgcauuGaGCaAAGCAuUGCGCUGa -3'
miRNA:   3'- -GGGACU-ACGU-------C-CG-UUCGUuACGUGAC- -5'
21872 5' -52.5 NC_004902.1 + 30058 0.67 0.710315
Target:  5'- aCCUaUGAucagauguuUGCAGGUAAGCAAUauggGCACa- -3'
miRNA:   3'- -GGG-ACU---------ACGUCCGUUCGUUA----CGUGac -5'
21872 5' -52.5 NC_004902.1 + 29190 0.68 0.664601
Target:  5'- -gCUGGUGCAGGC--GUGggGCAUUGg -3'
miRNA:   3'- ggGACUACGUCCGuuCGUuaCGUGAC- -5'
21872 5' -52.5 NC_004902.1 + 14651 0.68 0.641492
Target:  5'- cCCCUGAcucuuuggaUGguGGCuGGGCAGUGacaAUUGg -3'
miRNA:   3'- -GGGACU---------ACguCCG-UUCGUUACg--UGAC- -5'
21872 5' -52.5 NC_004902.1 + 3531 0.68 0.641492
Target:  5'- -aCUGGUcucGCAGGCGauugcAGCAAUGcCAUUGa -3'
miRNA:   3'- ggGACUA---CGUCCGU-----UCGUUAC-GUGAC- -5'
21872 5' -52.5 NC_004902.1 + 23555 0.68 0.618345
Target:  5'- aUCUGGUGC-GGCuGGCAGUGgACa- -3'
miRNA:   3'- gGGACUACGuCCGuUCGUUACgUGac -5'
21872 5' -52.5 NC_004902.1 + 8771 0.69 0.606786
Target:  5'- aCCCUGGUGCGagguuaagccauGGCAguuaaauugGGgGAUGCACc- -3'
miRNA:   3'- -GGGACUACGU------------CCGU---------UCgUUACGUGac -5'
21872 5' -52.5 NC_004902.1 + 5731 0.7 0.527102
Target:  5'- -aCUGAUGCugccGGCucuGCuGGUGCACUGa -3'
miRNA:   3'- ggGACUACGu---CCGuu-CG-UUACGUGAC- -5'
21872 5' -52.5 NC_004902.1 + 43476 0.73 0.364058
Target:  5'- uCCCUGGUGUAGGCuggcacAAGCAAcGCAagaaaUGg -3'
miRNA:   3'- -GGGACUACGUCCG------UUCGUUaCGUg----AC- -5'
21872 5' -52.5 NC_004902.1 + 36840 1.1 0.001043
Target:  5'- gCCCUGAUGCAGGCAAGCAAUGCACUGc -3'
miRNA:   3'- -GGGACUACGUCCGUUCGUUACGUGAC- -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.