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
622 3' -65.1 AC_000017.1 + 14273 0.66 0.242756
Target:  5'- aCCCaG-CGCCGcCGCCacuggcGCCGCgCUCaCCa -3'
miRNA:   3'- -GGG-CaGCGGCaGCGG------CGGCG-GAGgGG- -5'
622 3' -65.1 AC_000017.1 + 17374 0.66 0.240972
Target:  5'- cCCCGgcguccgCGCCGUucgaggaaguacggCGCCGCCaGCgcgcuaCUgCCCg -3'
miRNA:   3'- -GGGCa------GCGGCA--------------GCGGCGG-CG------GAgGGG- -5'
622 3' -65.1 AC_000017.1 + 13005 0.66 0.236851
Target:  5'- aCUCG-CGCCuGUUGCUGCUGCUaauagcgCCCUu -3'
miRNA:   3'- -GGGCaGCGG-CAGCGGCGGCGGa------GGGG- -5'
622 3' -65.1 AC_000017.1 + 9552 0.66 0.227089
Target:  5'- gCCGUcaccgagaccaugCGCCGUCGCCGCggggagaugaucgagCGCUUUgUCg -3'
miRNA:   3'- gGGCA-------------GCGGCAGCGGCG---------------GCGGAGgGG- -5'
622 3' -65.1 AC_000017.1 + 23618 0.66 0.224842
Target:  5'- cCCCG-CGCCacuggGUCgucuucauucaGCCGCCGCaccgugcgcuuacCUCCCUu -3'
miRNA:   3'- -GGGCaGCGG-----CAG-----------CGGCGGCG-------------GAGGGG- -5'
622 3' -65.1 AC_000017.1 + 12095 0.66 0.219856
Target:  5'- gCgGUCGCUGagcucgCGCCGCCGgCUCacgCUCa -3'
miRNA:   3'- gGgCAGCGGCa-----GCGGCGGCgGAG---GGG- -5'
622 3' -65.1 AC_000017.1 + 16094 0.66 0.214426
Target:  5'- ----aCGCCcaCGCCGCCGCCagugUCCaCCg -3'
miRNA:   3'- gggcaGCGGcaGCGGCGGCGG----AGG-GG- -5'
622 3' -65.1 AC_000017.1 + 3782 0.67 0.198824
Target:  5'- gCCGUUggagacugcaGCCucCGCCGCCGCUUCagCCg -3'
miRNA:   3'- gGGCAG----------CGGcaGCGGCGGCGGAGg-GG- -5'
622 3' -65.1 AC_000017.1 + 2215 0.67 0.198824
Target:  5'- gCUGcUGCUGUUGCUGCUGCUgcUCCuCCg -3'
miRNA:   3'- gGGCaGCGGCAGCGGCGGCGG--AGG-GG- -5'
622 3' -65.1 AC_000017.1 + 9654 0.67 0.193848
Target:  5'- aUCGUuagCGCCGUaucccUGCCGCacggcaGCC-CCCCg -3'
miRNA:   3'- gGGCA---GCGGCA-----GCGGCGg-----CGGaGGGG- -5'
622 3' -65.1 AC_000017.1 + 16198 0.67 0.179568
Target:  5'- -aCGUCGCCacCGCCGCCGa---CCCg -3'
miRNA:   3'- ggGCAGCGGcaGCGGCGGCggagGGG- -5'
622 3' -65.1 AC_000017.1 + 18594 0.68 0.153786
Target:  5'- gCCGUcCGCCGUuguuguaaccCGCCcuaGCCGCgCgUCCCUg -3'
miRNA:   3'- gGGCA-GCGGCA----------GCGG---CGGCG-G-AGGGG- -5'
622 3' -65.1 AC_000017.1 + 25382 0.69 0.13851
Target:  5'- --aGUCGCggacguaGUCGCgGCgCGCCUCgCCCu -3'
miRNA:   3'- gggCAGCGg------CAGCGgCG-GCGGAG-GGG- -5'
622 3' -65.1 AC_000017.1 + 22037 0.69 0.131405
Target:  5'- uCCUG-CGCCGUagCGCCauuGCCuCUUCCCCc -3'
miRNA:   3'- -GGGCaGCGGCA--GCGG---CGGcGGAGGGG- -5'
622 3' -65.1 AC_000017.1 + 17807 0.72 0.087989
Target:  5'- gCCCGUCagGCCGUgGCCgGCCauGCCcCUCCu -3'
miRNA:   3'- -GGGCAG--CGGCAgCGG-CGG--CGGaGGGG- -5'
622 3' -65.1 AC_000017.1 + 26818 0.72 0.074762
Target:  5'- gCCGcUGCUGUUGCUGCCGCUgCCgCCg -3'
miRNA:   3'- gGGCaGCGGCAGCGGCGGCGGaGG-GG- -5'
622 3' -65.1 AC_000017.1 + 9811 0.73 0.065217
Target:  5'- cCCCGacCGCCGccCGCUGCCGCC-CgCCa -3'
miRNA:   3'- -GGGCa-GCGGCa-GCGGCGGCGGaGgGG- -5'
622 3' -65.1 AC_000017.1 + 15139 0.76 0.036414
Target:  5'- uUCCG-CGCCGcugccacuguugUUGCCGCCGCCUgcgccacCCCCg -3'
miRNA:   3'- -GGGCaGCGGC------------AGCGGCGGCGGA-------GGGG- -5'
622 3' -65.1 AC_000017.1 + 2246 0.78 0.030046
Target:  5'- uCCUGcCGCCGcCGCCGCCugGCUUCCUCc -3'
miRNA:   3'- -GGGCaGCGGCaGCGGCGG--CGGAGGGG- -5'
622 3' -65.1 AC_000017.1 + 17534 0.88 0.004826
Target:  5'- gCCGcCGCCGUCGCCGUCGCCagCCCg -3'
miRNA:   3'- gGGCaGCGGCAGCGGCGGCGGagGGG- -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.