miRNA display CGI


Results 21 - 40 of 72 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
23386 3' -57.8 NC_005259.1 + 25080 0.67 0.570851
Target:  5'- -cGCUGCCACCGccGCu-GCGCC-CGc -3'
miRNA:   3'- ucUGACGGUGGCucCGuuCGUGGaGC- -5'
23386 3' -57.8 NC_005259.1 + 26140 0.75 0.203609
Target:  5'- cGAC-GCCGCCGAGGCcGAGCAgCC-CGa -3'
miRNA:   3'- uCUGaCGGUGGCUCCG-UUCGU-GGaGC- -5'
23386 3' -57.8 NC_005259.1 + 28009 0.68 0.498282
Target:  5'- gGGGCgggGUCGCCGGGGUugcGCGCgUUGg -3'
miRNA:   3'- -UCUGa--CGGUGGCUCCGuu-CGUGgAGC- -5'
23386 3' -57.8 NC_005259.1 + 28070 0.69 0.457721
Target:  5'- --cCUGCCGCCacacgguGGGGU--GCACCUCGa -3'
miRNA:   3'- ucuGACGGUGG-------CUCCGuuCGUGGAGC- -5'
23386 3' -57.8 NC_005259.1 + 29767 0.67 0.538288
Target:  5'- uGACUGaucagacCCA-CGAGGCAcccccGGUGCCUCGg -3'
miRNA:   3'- uCUGAC-------GGUgGCUCCGU-----UCGUGGAGC- -5'
23386 3' -57.8 NC_005259.1 + 29872 0.66 0.593182
Target:  5'- -aACUGCCACCGcccgaugucgaggucGGCAAGCACa--- -3'
miRNA:   3'- ucUGACGGUGGCu--------------CCGUUCGUGgagc -5'
23386 3' -57.8 NC_005259.1 + 33591 0.67 0.560287
Target:  5'- -cGCggGCCACCGAGGCGcggucgAGCugCa-- -3'
miRNA:   3'- ucUGa-CGGUGGCUCCGU------UCGugGagc -5'
23386 3' -57.8 NC_005259.1 + 34110 0.71 0.32717
Target:  5'- gAGAacgUGUCGCCGGGcGCGAGCACgUCc -3'
miRNA:   3'- -UCUg--ACGGUGGCUC-CGUUCGUGgAGc -5'
23386 3' -57.8 NC_005259.1 + 34531 0.78 0.112939
Target:  5'- cGACUGaCCACCGAGGCA---GCCUCa -3'
miRNA:   3'- uCUGAC-GGUGGCUCCGUucgUGGAGc -5'
23386 3' -57.8 NC_005259.1 + 34553 0.66 0.602799
Target:  5'- cAGcUUGCCgucgggGCCGAcGGCGAGguUCUCGg -3'
miRNA:   3'- -UCuGACGG------UGGCU-CCGUUCguGGAGC- -5'
23386 3' -57.8 NC_005259.1 + 34697 0.69 0.449054
Target:  5'- cGGAUgaUGCCgaccaucuGCCGc-GCGAGCGCCUCGu -3'
miRNA:   3'- -UCUG--ACGG--------UGGCucCGUUCGUGGAGC- -5'
23386 3' -57.8 NC_005259.1 + 34901 0.69 0.449054
Target:  5'- aGGACggGCCGCUcGGGCAucacacuGCuGCCUCGg -3'
miRNA:   3'- -UCUGa-CGGUGGcUCCGUu------CG-UGGAGC- -5'
23386 3' -57.8 NC_005259.1 + 35881 0.66 0.645687
Target:  5'- -aGCcGCCGCCGAGGCAgaccacGGCgaGCCa-- -3'
miRNA:   3'- ucUGaCGGUGGCUCCGU------UCG--UGGagc -5'
23386 3' -57.8 NC_005259.1 + 36944 0.72 0.289998
Target:  5'- -uGCUGUCACCGGGGUgcccgcGAGacCGCCUCGg -3'
miRNA:   3'- ucUGACGGUGGCUCCG------UUC--GUGGAGC- -5'
23386 3' -57.8 NC_005259.1 + 37177 0.67 0.570851
Target:  5'- cGAC-GCCGCgCGAGGaCGAGCugCg-- -3'
miRNA:   3'- uCUGaCGGUG-GCUCC-GUUCGugGagc -5'
23386 3' -57.8 NC_005259.1 + 37219 0.66 0.645687
Target:  5'- -cGCcGCCGCCGGGGCGcuGGC-CCgugcCGg -3'
miRNA:   3'- ucUGaCGGUGGCUCCGU--UCGuGGa---GC- -5'
23386 3' -57.8 NC_005259.1 + 37251 0.69 0.45869
Target:  5'- uGGCUGCCGCCGuugccAGGCuugAGGcCGCC-CGg -3'
miRNA:   3'- uCUGACGGUGGC-----UCCG---UUC-GUGGaGC- -5'
23386 3' -57.8 NC_005259.1 + 37716 0.73 0.269329
Target:  5'- --cCUGCCAgacCCGAGGCAccgccgccgacgAGCugCUCGa -3'
miRNA:   3'- ucuGACGGU---GGCUCCGU------------UCGugGAGC- -5'
23386 3' -57.8 NC_005259.1 + 38443 0.67 0.570851
Target:  5'- gAGACcgaaaaUGCCgugcgagggcACCGAgGGCAGaacaauuuGCACCUCGa -3'
miRNA:   3'- -UCUG------ACGG----------UGGCU-CCGUU--------CGUGGAGC- -5'
23386 3' -57.8 NC_005259.1 + 38954 0.7 0.367757
Target:  5'- -cGCUGCCGCCGAGaGCcuGCACgaUGg -3'
miRNA:   3'- ucUGACGGUGGCUC-CGuuCGUGgaGC- -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.