miRNA display CGI


Results 1 - 20 of 22 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
23462 5' -57.9 NC_005259.1 + 49590 0.71 0.301309
Target:  5'- gGGCGGGGUCaGCAccucgaccucgggCAGCUCAUCAUc -3'
miRNA:   3'- gUCGUCCCAGgCGUa------------GUCGAGUGGUG- -5'
23462 5' -57.9 NC_005259.1 + 28010 0.7 0.343073
Target:  5'- gGGCGGGGUCgccgggguugcgCGCGUUGGCcaGCCACg -3'
miRNA:   3'- gUCGUCCCAG------------GCGUAGUCGagUGGUG- -5'
23462 5' -57.9 NC_005259.1 + 47887 0.69 0.421513
Target:  5'- uGGCcGGGUCaGCGUCGGCUCGuuGa -3'
miRNA:   3'- gUCGuCCCAGgCGUAGUCGAGUggUg -5'
23462 5' -57.9 NC_005259.1 + 13792 0.69 0.421513
Target:  5'- gAGCAGuGGUgCGaCAUCaccGGCgagCACCACg -3'
miRNA:   3'- gUCGUC-CCAgGC-GUAG---UCGa--GUGGUG- -5'
23462 5' -57.9 NC_005259.1 + 61602 0.68 0.44996
Target:  5'- cCGGUGGGGUCgGCGgggaaCAGCagaccggCACCGCc -3'
miRNA:   3'- -GUCGUCCCAGgCGUa----GUCGa------GUGGUG- -5'
23462 5' -57.9 NC_005259.1 + 29132 0.68 0.459675
Target:  5'- gCGGCGGuaUUCGCcUC-GCUCACCGCg -3'
miRNA:   3'- -GUCGUCccAGGCGuAGuCGAGUGGUG- -5'
23462 5' -57.9 NC_005259.1 + 33117 0.68 0.479432
Target:  5'- -uGUAGGGcCaCGCggCAGC-CGCCGCg -3'
miRNA:   3'- guCGUCCCaG-GCGuaGUCGaGUGGUG- -5'
23462 5' -57.9 NC_005259.1 + 14566 0.68 0.499595
Target:  5'- gAGCGGGGaCCGgcgaacacCAUCGcGCUgGCCACc -3'
miRNA:   3'- gUCGUCCCaGGC--------GUAGU-CGAgUGGUG- -5'
23462 5' -57.9 NC_005259.1 + 24121 0.68 0.499595
Target:  5'- gGGCGGGGacuacaccgCCGCcgCccuGCUCGCCGa -3'
miRNA:   3'- gUCGUCCCa--------GGCGuaGu--CGAGUGGUg -5'
23462 5' -57.9 NC_005259.1 + 56373 0.68 0.499595
Target:  5'- aCAGCcgucgcGGG-CCGCGUCGGCUgAUCGu -3'
miRNA:   3'- -GUCGu-----CCCaGGCGUAGUCGAgUGGUg -5'
23462 5' -57.9 NC_005259.1 + 12133 0.67 0.520126
Target:  5'- aCAGCAccGGGUCUGCuuUCuugaUCACCGCc -3'
miRNA:   3'- -GUCGU--CCCAGGCGu-AGucg-AGUGGUG- -5'
23462 5' -57.9 NC_005259.1 + 35852 0.67 0.530516
Target:  5'- gAGCAcaGGUCCGCcgCcGCgucCACCGCa -3'
miRNA:   3'- gUCGUc-CCAGGCGuaGuCGa--GUGGUG- -5'
23462 5' -57.9 NC_005259.1 + 58691 0.67 0.530516
Target:  5'- -cGCGGGGUCgGCucGUC-GC-CGCCGCc -3'
miRNA:   3'- guCGUCCCAGgCG--UAGuCGaGUGGUG- -5'
23462 5' -57.9 NC_005259.1 + 11027 0.67 0.551512
Target:  5'- aGGCAGGaGUUCGCcg-GGUggUCACCGCa -3'
miRNA:   3'- gUCGUCC-CAGGCGuagUCG--AGUGGUG- -5'
23462 5' -57.9 NC_005259.1 + 46292 0.67 0.551512
Target:  5'- aCAGCGGGG-CCGCcgUGGCugcguuguUCGCgGCc -3'
miRNA:   3'- -GUCGUCCCaGGCGuaGUCG--------AGUGgUG- -5'
23462 5' -57.9 NC_005259.1 + 49219 0.66 0.594184
Target:  5'- -uGCGGGGUuuacUCGuCGUCGGaCUCgACCGCu -3'
miRNA:   3'- guCGUCCCA----GGC-GUAGUC-GAG-UGGUG- -5'
23462 5' -57.9 NC_005259.1 + 16717 0.66 0.594184
Target:  5'- gAGCAG-GUCgCGC-UCuGcCUCGCCACg -3'
miRNA:   3'- gUCGUCcCAG-GCGuAGuC-GAGUGGUG- -5'
23462 5' -57.9 NC_005259.1 + 94 0.66 0.594184
Target:  5'- gAGgaaGGGGUcagacaugaCCG-AUCAGCUCACCAUc -3'
miRNA:   3'- gUCg--UCCCA---------GGCgUAGUCGAGUGGUG- -5'
23462 5' -57.9 NC_005259.1 + 27926 0.66 0.594184
Target:  5'- uGGUAGcGGUUCgGCGaccCAGCUCGCCGg -3'
miRNA:   3'- gUCGUC-CCAGG-CGUa--GUCGAGUGGUg -5'
23462 5' -57.9 NC_005259.1 + 36639 0.66 0.604949
Target:  5'- -cGCAaGGcCCGCgAUCAGCgagcCGCCGCc -3'
miRNA:   3'- guCGUcCCaGGCG-UAGUCGa---GUGGUG- -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.