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 + 1611 0.69 0.162161
Target:  5'- aCGu-CAUCGCCGgaCAGGCGCGacauGCGGGc -3'
miRNA:   3'- -GCucGUAGCGGCg-GUCCGCGC----CGUCC- -5'
23065 3' -62.3 NC_005178.1 + 2863 0.68 0.200382
Target:  5'- gCGGGCAUCGgCGaCCAGuuGCuGGCGGu -3'
miRNA:   3'- -GCUCGUAGCgGC-GGUCcgCG-CCGUCc -5'
23065 3' -62.3 NC_005178.1 + 4569 0.69 0.188654
Target:  5'- gGAGCGUUGCCGCUcGGCcagcucgcaccacuGCcgguagcgcugGGCGGGa -3'
miRNA:   3'- gCUCGUAGCGGCGGuCCG--------------CG-----------CCGUCC- -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 + 5606 0.75 0.065116
Target:  5'- uCGA-CGUaGCCGcCCAGGCGCaGGCAGGc -3'
miRNA:   3'- -GCUcGUAgCGGC-GGUCCGCG-CCGUCC- -5'
23065 3' -62.3 NC_005178.1 + 5732 0.7 0.157873
Target:  5'- gGAGCAgaUCGCCGCaucGGUGgCGGCcucGGGc -3'
miRNA:   3'- gCUCGU--AGCGGCGgu-CCGC-GCCG---UCC- -5'
23065 3' -62.3 NC_005178.1 + 6850 0.71 0.117077
Target:  5'- aGGGCAUCaCCGaCCAGGaucaGCaGCAGGc -3'
miRNA:   3'- gCUCGUAGcGGC-GGUCCg---CGcCGUCC- -5'
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 + 7346 0.67 0.252509
Target:  5'- cCGGGCggCGUCGUUgaAGGUGC-GCAGGc -3'
miRNA:   3'- -GCUCGuaGCGGCGG--UCCGCGcCGUCC- -5'
23065 3' -62.3 NC_005178.1 + 8872 0.68 0.200382
Target:  5'- cCGGGCGacuuucUUGCCGaCCuGGUGCGGCucagcGGu -3'
miRNA:   3'- -GCUCGU------AGCGGC-GGuCCGCGCCGu----CC- -5'
23065 3' -62.3 NC_005178.1 + 9408 0.69 0.162161
Target:  5'- gCGAGCG-CGCCguGCCAGGCacucGUcGCAGGc -3'
miRNA:   3'- -GCUCGUaGCGG--CGGUCCG----CGcCGUCC- -5'
23065 3' -62.3 NC_005178.1 + 9521 0.68 0.21663
Target:  5'- aGAccGCcagCGCCGCCuGGCGCGGgAa- -3'
miRNA:   3'- gCU--CGua-GCGGCGGuCCGCGCCgUcc -5'
23065 3' -62.3 NC_005178.1 + 10313 0.69 0.180376
Target:  5'- -uGGCGgauaGCCgaggGCCGGGCGCGGaGGGg -3'
miRNA:   3'- gcUCGUag--CGG----CGGUCCGCGCCgUCC- -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 + 10710 0.67 0.233992
Target:  5'- --cGCGUCGCacucacCGCCAGGaugGCGGCAu- -3'
miRNA:   3'- gcuCGUAGCG------GCGGUCCg--CGCCGUcc -5'
23065 3' -62.3 NC_005178.1 + 10869 0.7 0.153688
Target:  5'- aGAGCGuuacgacgcUCGCgGCUGGGCuCGGcCAGGa -3'
miRNA:   3'- gCUCGU---------AGCGgCGGUCCGcGCC-GUCC- -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 + 11878 0.68 0.222291
Target:  5'- cCGAGCAgaUCGC--CCAGGCcguGCGGgAGGu -3'
miRNA:   3'- -GCUCGU--AGCGgcGGUCCG---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 + 12438 0.69 0.180376
Target:  5'- uGAGcCAagGCCGCCGGuaGUGGCcuGGGc -3'
miRNA:   3'- gCUC-GUagCGGCGGUCcgCGCCG--UCC- -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.