miRNA display CGI


Results 1 - 20 of 59 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
11409 3' -54.4 NC_003085.1 + 5799 0.67 0.701879
Target:  5'- --cGugGCCuuCGUcGGAG-CGGUGCGCa -3'
miRNA:   3'- gcuUugUGGu-GUA-CCUCgGCCACGCG- -5'
11409 3' -54.4 NC_003085.1 + 40658 0.68 0.635577
Target:  5'- gGcuGCGCCGCGcaaccucgcGGAGCCGccgGCGCa -3'
miRNA:   3'- gCuuUGUGGUGUa--------CCUCGGCca-CGCG- -5'
11409 3' -54.4 NC_003085.1 + 22865 0.68 0.635577
Target:  5'- cCGGcAGCGCCcACAggugguaccgaGGAGCCuGGUGCGa -3'
miRNA:   3'- -GCU-UUGUGG-UGUa----------CCUCGG-CCACGCg -5'
11409 3' -54.4 NC_003085.1 + 36409 0.68 0.646697
Target:  5'- aCGGAAagucacccuCCGCAcGGAGCCGGgacucaccGUGCg -3'
miRNA:   3'- -GCUUUgu-------GGUGUaCCUCGGCCa-------CGCG- -5'
11409 3' -54.4 NC_003085.1 + 32218 0.67 0.668887
Target:  5'- gCGcAACACCGCccaGAGCaCGGgGCGCc -3'
miRNA:   3'- -GCuUUGUGGUGuacCUCG-GCCaCGCG- -5'
11409 3' -54.4 NC_003085.1 + 45854 0.67 0.679934
Target:  5'- gCGgcGCAcguCCAgGcGGAGCCGGUGgGg -3'
miRNA:   3'- -GCuuUGU---GGUgUaCCUCGGCCACgCg -5'
11409 3' -54.4 NC_003085.1 + 47715 0.67 0.679934
Target:  5'- uCGAcuGCugCGCcUGcugacGGGCgCGGUGCGCg -3'
miRNA:   3'- -GCUu-UGugGUGuAC-----CUCG-GCCACGCG- -5'
11409 3' -54.4 NC_003085.1 + 5460 0.67 0.679934
Target:  5'- cCGGAugcaGCACCACGUGcugcccucguuGGGCgacaaggaacuCGGUGUGCu -3'
miRNA:   3'- -GCUU----UGUGGUGUAC-----------CUCG-----------GCCACGCG- -5'
11409 3' -54.4 NC_003085.1 + 25895 0.67 0.701879
Target:  5'- gGAcGCGCUucucCAgaagauUGG-GCCGGUGCGUg -3'
miRNA:   3'- gCUuUGUGGu---GU------ACCuCGGCCACGCG- -5'
11409 3' -54.4 NC_003085.1 + 18873 0.68 0.624453
Target:  5'- gCGAA--GgCugAUGGAGCCGG-GCGa -3'
miRNA:   3'- -GCUUugUgGugUACCUCGGCCaCGCg -5'
11409 3' -54.4 NC_003085.1 + 9719 0.68 0.587846
Target:  5'- cCGGAACGCCuguguguccucggcGuCAUGGAGuCCaGG-GCGCg -3'
miRNA:   3'- -GCUUUGUGG--------------U-GUACCUC-GG-CCaCGCG- -5'
11409 3' -54.4 NC_003085.1 + 15180 0.69 0.580123
Target:  5'- --uGACgGCC-CGgcuGAGCCGGUGCGCc -3'
miRNA:   3'- gcuUUG-UGGuGUac-CUCGGCCACGCG- -5'
11409 3' -54.4 NC_003085.1 + 39494 0.73 0.326544
Target:  5'- uCGAGGCGCU-CGaGaAGCCGGUGCGCc -3'
miRNA:   3'- -GCUUUGUGGuGUaCcUCGGCCACGCG- -5'
11409 3' -54.4 NC_003085.1 + 4090 0.72 0.386473
Target:  5'- uGGAGCGcCCGCAcucgccgcUGGAGuuGG-GCGCc -3'
miRNA:   3'- gCUUUGU-GGUGU--------ACCUCggCCaCGCG- -5'
11409 3' -54.4 NC_003085.1 + 12347 0.72 0.386473
Target:  5'- aGGGcacGCGCCACAUGGuGUCGcUGUGCc -3'
miRNA:   3'- gCUU---UGUGGUGUACCuCGGCcACGCG- -5'
11409 3' -54.4 NC_003085.1 + 12698 0.71 0.443295
Target:  5'- gGAuGACGCCACGcc--GCUGGUGCGCu -3'
miRNA:   3'- gCU-UUGUGGUGUaccuCGGCCACGCG- -5'
11409 3' -54.4 NC_003085.1 + 494 0.7 0.473413
Target:  5'- gCGAGGCugaggGCCuGCGuuUGGAGCCGGUGUc- -3'
miRNA:   3'- -GCUUUG-----UGG-UGU--ACCUCGGCCACGcg -5'
11409 3' -54.4 NC_003085.1 + 13836 0.7 0.483681
Target:  5'- -cAGACGCCGCccagGGAaguGCCGGaUGUGCg -3'
miRNA:   3'- gcUUUGUGGUGua--CCU---CGGCC-ACGCG- -5'
11409 3' -54.4 NC_003085.1 + 34963 0.7 0.504527
Target:  5'- gGAGGCGCCucACA-GGaAGCCGaugaccucGUGCGCa -3'
miRNA:   3'- gCUUUGUGG--UGUaCC-UCGGC--------CACGCG- -5'
11409 3' -54.4 NC_003085.1 + 39582 0.7 0.515094
Target:  5'- --cGGCGCCAC-UGGcaAGCUGGaGCGCg -3'
miRNA:   3'- gcuUUGUGGUGuACC--UCGGCCaCGCG- -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.