miRNA display CGI


Results 1 - 20 of 84 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
19288 3' -57.8 NC_004685.1 + 37322 0.66 0.695221
Target:  5'- -gGGCGCaggGCCUCGGUGCC---GAGa -3'
miRNA:   3'- ggCUGCGg--CGGAGCUACGGgaaCUCg -5'
19288 3' -57.8 NC_004685.1 + 30307 0.66 0.694183
Target:  5'- gCCG-CGCCGCC-CGGUGUugugccguuuccgCCgaGGGUg -3'
miRNA:   3'- -GGCuGCGGCGGaGCUACG-------------GGaaCUCG- -5'
19288 3' -57.8 NC_004685.1 + 55507 0.66 0.684822
Target:  5'- aCCGACaGCCcgGCgUCGAgcagcaucugaaUGCCCUUcacccggucGGGCu -3'
miRNA:   3'- -GGCUG-CGG--CGgAGCU------------ACGGGAA---------CUCG- -5'
19288 3' -57.8 NC_004685.1 + 57727 0.66 0.684822
Target:  5'- cCCGACGCCGCgCUgCGucgucGUCgUUG-GCa -3'
miRNA:   3'- -GGCUGCGGCG-GA-GCua---CGGgAACuCG- -5'
19288 3' -57.8 NC_004685.1 + 69285 0.66 0.684822
Target:  5'- cUCGcCGCCGCCUaCGAgcaGCUCga-GGCg -3'
miRNA:   3'- -GGCuGCGGCGGA-GCUa--CGGGaacUCG- -5'
19288 3' -57.8 NC_004685.1 + 61685 0.66 0.684822
Target:  5'- gCGGCGcCCGaCCUUGAacCCCUUGAu- -3'
miRNA:   3'- gGCUGC-GGC-GGAGCUacGGGAACUcg -5'
19288 3' -57.8 NC_004685.1 + 8813 0.66 0.684822
Target:  5'- gCCGACcuGCUggGCCUCGAUGag---GAGCa -3'
miRNA:   3'- -GGCUG--CGG--CGGAGCUACgggaaCUCG- -5'
19288 3' -57.8 NC_004685.1 + 63244 0.66 0.684822
Target:  5'- gCCGG-GCUguucggGCCaggUGAUGCCCUUG-GCg -3'
miRNA:   3'- -GGCUgCGG------CGGa--GCUACGGGAACuCG- -5'
19288 3' -57.8 NC_004685.1 + 38835 0.66 0.674378
Target:  5'- cUCGGCGCgaaccuuggCGuCCUCGAccUGCCacUGAGCc -3'
miRNA:   3'- -GGCUGCG---------GC-GGAGCU--ACGGgaACUCG- -5'
19288 3' -57.8 NC_004685.1 + 32470 0.66 0.674378
Target:  5'- aUCGGCGCgGCCcCGGcgcUGCCCaaccuGGCa -3'
miRNA:   3'- -GGCUGCGgCGGaGCU---ACGGGaac--UCG- -5'
19288 3' -57.8 NC_004685.1 + 27928 0.66 0.67019
Target:  5'- aCCG-CGCCGUCaacgcccCGAUGCCUacauccuggcgacUGAGCg -3'
miRNA:   3'- -GGCuGCGGCGGa------GCUACGGGa------------ACUCG- -5'
19288 3' -57.8 NC_004685.1 + 54488 0.66 0.663897
Target:  5'- aCCGcguaAUGCCGCCUCGucauggcagauGUGCCCa----- -3'
miRNA:   3'- -GGC----UGCGGCGGAGC-----------UACGGGaacucg -5'
19288 3' -57.8 NC_004685.1 + 10295 0.66 0.663897
Target:  5'- uCCGGCGCgGUCgacgUGcUGCCCgacaccgaaGAGCa -3'
miRNA:   3'- -GGCUGCGgCGGa---GCuACGGGaa-------CUCG- -5'
19288 3' -57.8 NC_004685.1 + 18910 0.66 0.653389
Target:  5'- gCCGACGCgCGCCgCGAcgGCgC--GGGCg -3'
miRNA:   3'- -GGCUGCG-GCGGaGCUa-CGgGaaCUCG- -5'
19288 3' -57.8 NC_004685.1 + 4966 0.66 0.653389
Target:  5'- aCCGACuuUGCCUaUGggGCgCCgUGAGCa -3'
miRNA:   3'- -GGCUGcgGCGGA-GCuaCG-GGaACUCG- -5'
19288 3' -57.8 NC_004685.1 + 31838 0.66 0.653389
Target:  5'- uCCGACGCCGCuguaCUCGGccaCCUgaAGCu -3'
miRNA:   3'- -GGCUGCGGCG----GAGCUacgGGAacUCG- -5'
19288 3' -57.8 NC_004685.1 + 20169 0.66 0.642863
Target:  5'- cCCGACGCCGCguCUCGAcgaguuccUGaacgaccccauCCUgcagUGGGCg -3'
miRNA:   3'- -GGCUGCGGCG--GAGCU--------AC-----------GGGa---ACUCG- -5'
19288 3' -57.8 NC_004685.1 + 59033 0.66 0.642863
Target:  5'- -aGACGCCGaugagcaUCGca-CCCUUGGGCa -3'
miRNA:   3'- ggCUGCGGCgg-----AGCuacGGGAACUCG- -5'
19288 3' -57.8 NC_004685.1 + 60385 0.66 0.64181
Target:  5'- cUCGcCGCCGCuguuaggCUCGGgugGCCCUgcAGCu -3'
miRNA:   3'- -GGCuGCGGCG-------GAGCUa--CGGGAacUCG- -5'
19288 3' -57.8 NC_004685.1 + 57094 0.67 0.632328
Target:  5'- cUCGGCGgCGCgUUCGGacacgguuugGCCCUucuUGAGCa -3'
miRNA:   3'- -GGCUGCgGCG-GAGCUa---------CGGGA---ACUCG- -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.