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
23031 5' -62.5 NC_005178.1 + 1515 0.66 0.233846
Target:  5'- -gCGGCguaguugcacuCACCAGGUauaGcGCGGGCCGGCu -3'
miRNA:   3'- uaGUCG-----------GUGGUCCGc--C-CGUCUGGCCG- -5'
23031 5' -62.5 NC_005178.1 + 1658 0.69 0.152681
Target:  5'- gAUCAGCU--CGGGCGGGacucGACCaGGCg -3'
miRNA:   3'- -UAGUCGGugGUCCGCCCgu--CUGG-CCG- -5'
23031 5' -62.5 NC_005178.1 + 2748 0.68 0.165205
Target:  5'- --uGGCCACCaAGGCGGuccgccaggagacGCAG-CUGGCc -3'
miRNA:   3'- uagUCGGUGG-UCCGCC-------------CGUCuGGCCG- -5'
23031 5' -62.5 NC_005178.1 + 2876 0.66 0.239969
Target:  5'- -gCAGCacccCCuGGCGGGCA--UCGGCg -3'
miRNA:   3'- uaGUCGgu--GGuCCGCCCGUcuGGCCG- -5'
23031 5' -62.5 NC_005178.1 + 3231 0.73 0.075862
Target:  5'- cGUCAGCCGCgAGGuCGGGCGcAUgGGUg -3'
miRNA:   3'- -UAGUCGGUGgUCC-GCCCGUcUGgCCG- -5'
23031 5' -62.5 NC_005178.1 + 3515 0.66 0.265134
Target:  5'- -cCA-CCACCAGGgccgacuCGGcCAGGCCGGUg -3'
miRNA:   3'- uaGUcGGUGGUCC-------GCCcGUCUGGCCG- -5'
23031 5' -62.5 NC_005178.1 + 4608 0.68 0.181543
Target:  5'- cUCGaaCCACUGGGCggcguccggcucgauGGGCAGGCCGGa -3'
miRNA:   3'- uAGUc-GGUGGUCCG---------------CCCGUCUGGCCg -5'
23031 5' -62.5 NC_005178.1 + 4964 0.72 0.087451
Target:  5'- gGUCGGCCAuuuCCGGGauGGUcccGGCCGGCu -3'
miRNA:   3'- -UAGUCGGU---GGUCCgcCCGu--CUGGCCG- -5'
23031 5' -62.5 NC_005178.1 + 5232 0.72 0.097917
Target:  5'- -aUAGCCACUccgGGGCu-GUAGACCGGCg -3'
miRNA:   3'- uaGUCGGUGG---UCCGccCGUCUGGCCG- -5'
23031 5' -62.5 NC_005178.1 + 5601 0.68 0.187967
Target:  5'- -gUAGCCGcCCAGGCGcaGGCAGGCgacauacuucucgaCGGUc -3'
miRNA:   3'- uaGUCGGU-GGUCCGC--CCGUCUG--------------GCCG- -5'
23031 5' -62.5 NC_005178.1 + 6895 0.69 0.161222
Target:  5'- cAUUAGCacccccacuGCCAGGCaaugaggcGGCGGAUCGGCa -3'
miRNA:   3'- -UAGUCGg--------UGGUCCGc-------CCGUCUGGCCG- -5'
23031 5' -62.5 NC_005178.1 + 7391 0.69 0.156899
Target:  5'- uGUCGGCU-CCAGGCGaugaaGGCGGACCcccauGCg -3'
miRNA:   3'- -UAGUCGGuGGUCCGC-----CCGUCUGGc----CG- -5'
23031 5' -62.5 NC_005178.1 + 7798 0.66 0.233846
Target:  5'- --aGGaCCGCCAGGCGcuucuucaGGUcuucGGCCGGCu -3'
miRNA:   3'- uagUC-GGUGGUCCGC--------CCGu---CUGGCCG- -5'
23031 5' -62.5 NC_005178.1 + 11018 0.66 0.265806
Target:  5'- uGUCGGUgACgCGGG-GGGCAGGa-GGCg -3'
miRNA:   3'- -UAGUCGgUG-GUCCgCCCGUCUggCCG- -5'
23031 5' -62.5 NC_005178.1 + 11359 0.69 0.140638
Target:  5'- -cCGGCCACCAccUGGGCGGACUcgaacagcucggGGCg -3'
miRNA:   3'- uaGUCGGUGGUccGCCCGUCUGG------------CCG- -5'
23031 5' -62.5 NC_005178.1 + 11447 1.09 0.000094
Target:  5'- gAUCAGCCACCAGGCGGGCAGACCGGCa -3'
miRNA:   3'- -UAGUCGGUGGUCCGCCCGUCUGGCCG- -5'
23031 5' -62.5 NC_005178.1 + 11757 0.67 0.215696
Target:  5'- -aCGGCCguggcccgaGCCAuGGgGGuuccgccGCAGGCCGGCc -3'
miRNA:   3'- uaGUCGG---------UGGU-CCgCC-------CGUCUGGCCG- -5'
23031 5' -62.5 NC_005178.1 + 11875 0.69 0.14979
Target:  5'- -gCGGUCACCAGGgcggccaggguguccUGGuccauguGCAGGCCGGCc -3'
miRNA:   3'- uaGUCGGUGGUCC---------------GCC-------CGUCUGGCCG- -5'
23031 5' -62.5 NC_005178.1 + 12098 0.68 0.179605
Target:  5'- --uGGUCGCguGGCGGGCcuGGCCgaugGGCg -3'
miRNA:   3'- uagUCGGUGguCCGCCCGu-CUGG----CCG- -5'
23031 5' -62.5 NC_005178.1 + 12289 0.66 0.265806
Target:  5'- uGUCGGCCcgcuugGCCAGGCGcuGGaaaAGAgCCGcGCu -3'
miRNA:   3'- -UAGUCGG------UGGUCCGC--CCg--UCU-GGC-CG- -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.