miRNA display CGI


Results 1 - 17 of 17 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
20905 5' -61.3 NC_004689.1 + 53193 0.66 0.4821
Target:  5'- aGGCa----GCCCCGccAGCCGACGaUCCa -3'
miRNA:   3'- gCCGguagaCGGGGC--UCGGUUGC-GGG- -5'
20905 5' -61.3 NC_004689.1 + 68561 0.66 0.479221
Target:  5'- uGGUCGUCggugGaCCCGcacucuaggucgguGGCCGguACGCCCu -3'
miRNA:   3'- gCCGGUAGa---CgGGGC--------------UCGGU--UGCGGG- -5'
20905 5' -61.3 NC_004689.1 + 13934 0.66 0.469687
Target:  5'- cCGGcCCGUC-GUUCUGAGCCugcaagcggcgucguCGCCCu -3'
miRNA:   3'- -GCC-GGUAGaCGGGGCUCGGuu-------------GCGGG- -5'
20905 5' -61.3 NC_004689.1 + 16036 0.66 0.453704
Target:  5'- uCGGCCAcuUCcugcgaaagcgUGUUCCGcuuGCCGuCGCCCa -3'
miRNA:   3'- -GCCGGU--AG-----------ACGGGGCu--CGGUuGCGGG- -5'
20905 5' -61.3 NC_004689.1 + 478 0.66 0.450914
Target:  5'- gGGCCGUCcgguuUGCCCaUGAGCgCGuucggugcuucuacACGCUCu -3'
miRNA:   3'- gCCGGUAG-----ACGGG-GCUCG-GU--------------UGCGGG- -5'
20905 5' -61.3 NC_004689.1 + 48865 0.67 0.435286
Target:  5'- gCGGCCAUCcgcugagccUGCUCCGcGC--ACGCUCu -3'
miRNA:   3'- -GCCGGUAG---------ACGGGGCuCGguUGCGGG- -5'
20905 5' -61.3 NC_004689.1 + 22637 0.67 0.426241
Target:  5'- aCGGCCcg-UGCCCUGAugaaccacGCCGAuUGCCUg -3'
miRNA:   3'- -GCCGGuagACGGGGCU--------CGGUU-GCGGG- -5'
20905 5' -61.3 NC_004689.1 + 11458 0.67 0.408491
Target:  5'- uGGCCugc-GCCaCCGAGaaCCGccGCGCCCu -3'
miRNA:   3'- gCCGGuagaCGG-GGCUC--GGU--UGCGGG- -5'
20905 5' -61.3 NC_004689.1 + 37241 0.67 0.407615
Target:  5'- cCGGCgCAUCcgUGCUggucagcagcgauUCGAGCuUGACGCCCa -3'
miRNA:   3'- -GCCG-GUAG--ACGG-------------GGCUCG-GUUGCGGG- -5'
20905 5' -61.3 NC_004689.1 + 20355 0.69 0.321792
Target:  5'- cCGGCgAUacCUGCCUugguuccccacgcggCGAgcuugucGCCAACGCCCa -3'
miRNA:   3'- -GCCGgUA--GACGGG---------------GCU-------CGGUUGCGGG- -5'
20905 5' -61.3 NC_004689.1 + 23933 0.69 0.29798
Target:  5'- gCGGCCAcCUgaccggcaGCCUgaauugcaGAGCCAGCGCCg -3'
miRNA:   3'- -GCCGGUaGA--------CGGGg-------CUCGGUUGCGGg -5'
20905 5' -61.3 NC_004689.1 + 50585 0.7 0.270978
Target:  5'- gGGCCAUUUGCUCUGcGUCGucugcgauGCGCUCg -3'
miRNA:   3'- gCCGGUAGACGGGGCuCGGU--------UGCGGG- -5'
20905 5' -61.3 NC_004689.1 + 45545 0.7 0.264543
Target:  5'- uCGGCCAUC-GCCUucacgauuuCGGGCCggUGCUg -3'
miRNA:   3'- -GCCGGUAGaCGGG---------GCUCGGuuGCGGg -5'
20905 5' -61.3 NC_004689.1 + 6030 0.71 0.245979
Target:  5'- uCGGCC-UCUGCCUC-AGCCAACaGCa- -3'
miRNA:   3'- -GCCGGuAGACGGGGcUCGGUUG-CGgg -5'
20905 5' -61.3 NC_004689.1 + 58693 0.71 0.228509
Target:  5'- aCGGUCcaGUC-GCCCUuacgaGAGCCGggACGCCCg -3'
miRNA:   3'- -GCCGG--UAGaCGGGG-----CUCGGU--UGCGGG- -5'
20905 5' -61.3 NC_004689.1 + 7064 0.73 0.173236
Target:  5'- aCGaGCUugAUCUGuCCCCGuGCCAA-GCCCa -3'
miRNA:   3'- -GC-CGG--UAGAC-GGGGCuCGGUUgCGGG- -5'
20905 5' -61.3 NC_004689.1 + 22696 0.74 0.148
Target:  5'- cCGGCCuUCaugccagcuucggUGCCgCGAGCCAcuGCGCCUu -3'
miRNA:   3'- -GCCGGuAG-------------ACGGgGCUCGGU--UGCGGG- -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.