miRNA display CGI


Results 1 - 20 of 57 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
23065 3' -62.3 NC_005178.1 + 7235 0.66 0.300386
Target:  5'- gCGGGUugCGUgGaCAGGCGCGGCAc- -3'
miRNA:   3'- -GCUCGuaGCGgCgGUCCGCGCCGUcc -5'
23065 3' -62.3 NC_005178.1 + 22921 0.66 0.299655
Target:  5'- uGGGCcaCGaCCGCCGgaucgauGGuCGUGGCGGGu -3'
miRNA:   3'- gCUCGuaGC-GGCGGU-------CC-GCGCCGUCC- -5'
23065 3' -62.3 NC_005178.1 + 31374 0.66 0.299655
Target:  5'- -cGGCG-CGgCGCCAGGCGCauagcccGGCGcuGGg -3'
miRNA:   3'- gcUCGUaGCgGCGGUCCGCG-------CCGU--CC- -5'
23065 3' -62.3 NC_005178.1 + 32883 0.66 0.292421
Target:  5'- gCGAugGUCGCCaacgacuGCCgugcAGGUGCGGCAGu -3'
miRNA:   3'- -GCUcgUAGCGG-------CGG----UCCGCGCCGUCc -5'
23065 3' -62.3 NC_005178.1 + 18411 0.66 0.286027
Target:  5'- aGAGU---GCCGCCAGGCGCucCuGGa -3'
miRNA:   3'- gCUCGuagCGGCGGUCCGCGccGuCC- -5'
23065 3' -62.3 NC_005178.1 + 21197 0.66 0.279053
Target:  5'- aGAcCGUCGCCGCCAcGGa-CGGCAc- -3'
miRNA:   3'- gCUcGUAGCGGCGGU-CCgcGCCGUcc -5'
23065 3' -62.3 NC_005178.1 + 11289 0.66 0.279053
Target:  5'- cCGAGCuguUCGaguCCGcCCAGGUGgUGGCcGGg -3'
miRNA:   3'- -GCUCGu--AGC---GGC-GGUCCGC-GCCGuCC- -5'
23065 3' -62.3 NC_005178.1 + 23532 0.66 0.265513
Target:  5'- cCGAGCAgcgggccggcuUCG-CGCCGGGCGCccuGGCcgucgcccuGGGc -3'
miRNA:   3'- -GCUCGU-----------AGCgGCGGUCCGCG---CCG---------UCC- -5'
23065 3' -62.3 NC_005178.1 + 26185 0.67 0.258945
Target:  5'- -cGGCgGUgGCCGCUgcGGGCGUGGCGcuGGc -3'
miRNA:   3'- gcUCG-UAgCGGCGG--UCCGCGCCGU--CC- -5'
23065 3' -62.3 NC_005178.1 + 10431 0.67 0.258945
Target:  5'- aCGuGGC-UCGCUGCCacaAGGCGCuGGUAcGGu -3'
miRNA:   3'- -GC-UCGuAGCGGCGG---UCCGCG-CCGU-CC- -5'
23065 3' -62.3 NC_005178.1 + 21761 0.67 0.255068
Target:  5'- aGGGCaccgcuccgcuuuccAaCGCCaGCCAGGCGgCGGCgaAGGc -3'
miRNA:   3'- gCUCG---------------UaGCGG-CGGUCCGC-GCCG--UCC- -5'
23065 3' -62.3 NC_005178.1 + 7346 0.67 0.252509
Target:  5'- cCGGGCggCGUCGUUgaAGGUGC-GCAGGc -3'
miRNA:   3'- -GCUCGuaGCGGCGG--UCCGCGcCGUCC- -5'
23065 3' -62.3 NC_005178.1 + 12630 0.67 0.251238
Target:  5'- uCGAGCGUaaggccgUGCUguacggcucggcgGCCGGcGCGCuGGCGGGu -3'
miRNA:   3'- -GCUCGUA-------GCGG-------------CGGUC-CGCG-CCGUCC- -5'
23065 3' -62.3 NC_005178.1 + 22461 0.67 0.246207
Target:  5'- uGAGCugCGCCucaGUCAGG-GCGGaCAGGg -3'
miRNA:   3'- gCUCGuaGCGG---CGGUCCgCGCC-GUCC- -5'
23065 3' -62.3 NC_005178.1 + 27164 0.67 0.240035
Target:  5'- uCGGGUua-GCCGCCuGGauCGCGGCAa- -3'
miRNA:   3'- -GCUCGuagCGGCGGuCC--GCGCCGUcc -5'
23065 3' -62.3 NC_005178.1 + 10710 0.67 0.233992
Target:  5'- --cGCGUCGCacucacCGCCAGGaugGCGGCAu- -3'
miRNA:   3'- gcuCGUAGCG------GCGGUCCg--CGCCGUcc -5'
23065 3' -62.3 NC_005178.1 + 12389 0.67 0.233992
Target:  5'- uCGAGC--UGCUGCaugacgccagCAGGaaaGCGGCAGGc -3'
miRNA:   3'- -GCUCGuaGCGGCG----------GUCCg--CGCCGUCC- -5'
23065 3' -62.3 NC_005178.1 + 20446 0.67 0.233992
Target:  5'- uGGGCGUCcaggGCCGgcuUCAGG-GCGGuCAGGg -3'
miRNA:   3'- gCUCGUAG----CGGC---GGUCCgCGCC-GUCC- -5'
23065 3' -62.3 NC_005178.1 + 5265 0.67 0.228078
Target:  5'- gGAGCAguuggccgagGCCGCCAccguucagggccGGCGCGaGCuGGa -3'
miRNA:   3'- gCUCGUag--------CGGCGGU------------CCGCGC-CGuCC- -5'
23065 3' -62.3 NC_005178.1 + 36105 0.67 0.228078
Target:  5'- gGAGUAcaUGCCGcCCAGGUuggGCuGGCGGGu -3'
miRNA:   3'- gCUCGUa-GCGGC-GGUCCG---CG-CCGUCC- -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.