miRNA display CGI


Results 1 - 18 of 18 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
18347 3' -64.2 NC_004681.1 + 3733 0.66 0.382323
Target:  5'- ---aAGGCGAGGGcGGCCugcuucuugucgcGGGCGaCGc -3'
miRNA:   3'- gccaUCCGCUCCCuCCGGu------------CCCGC-GC- -5'
18347 3' -64.2 NC_004681.1 + 45381 0.66 0.377423
Target:  5'- ---aAGGCGGGGGAGcaCCucaAGGGCaGCGg -3'
miRNA:   3'- gccaUCCGCUCCCUCc-GG---UCCCG-CGC- -5'
18347 3' -64.2 NC_004681.1 + 48770 0.66 0.377423
Target:  5'- aCGGc-GGCuacaccugGAGuGAGGCCgucgAGGGCGCGg -3'
miRNA:   3'- -GCCauCCG--------CUCcCUCCGG----UCCCGCGC- -5'
18347 3' -64.2 NC_004681.1 + 14903 0.66 0.377423
Target:  5'- uCGGUacgggccagcuGGGCGccagccuucaGGAuGGCCAGGGCGUc -3'
miRNA:   3'- -GCCA-----------UCCGCuc--------CCU-CCGGUCCCGCGc -5'
18347 3' -64.2 NC_004681.1 + 25669 0.66 0.369352
Target:  5'- gGGUAuGGCcacaGGGGcGGGGCCA-GGCGuCGg -3'
miRNA:   3'- gCCAU-CCG----CUCC-CUCCGGUcCCGC-GC- -5'
18347 3' -64.2 NC_004681.1 + 49800 0.66 0.369352
Target:  5'- uGGUggaGGGUGAGGGggagguagAGGCCgcAGaGCGCGc -3'
miRNA:   3'- gCCA---UCCGCUCCC--------UCCGG--UCcCGCGC- -5'
18347 3' -64.2 NC_004681.1 + 21374 0.66 0.3614
Target:  5'- aGGcccuUGGGCuGGGGGucGCCAGGGaGCc -3'
miRNA:   3'- gCC----AUCCG-CUCCCucCGGUCCCgCGc -5'
18347 3' -64.2 NC_004681.1 + 62704 0.66 0.353567
Target:  5'- cCGGaugAGGCGGacGGGGUgGGGGCGUa -3'
miRNA:   3'- -GCCa--UCCGCUccCUCCGgUCCCGCGc -5'
18347 3' -64.2 NC_004681.1 + 62630 0.66 0.345855
Target:  5'- aGGUAgacGGUGucGGAGGCggcugcCAGGGUGCc -3'
miRNA:   3'- gCCAU---CCGCucCCUCCG------GUCCCGCGc -5'
18347 3' -64.2 NC_004681.1 + 36295 0.67 0.338265
Target:  5'- uGGUGGcCGAGGuuGAgcGGCUGcGGGCGCGg -3'
miRNA:   3'- gCCAUCcGCUCC--CU--CCGGU-CCCGCGC- -5'
18347 3' -64.2 NC_004681.1 + 9630 0.67 0.301453
Target:  5'- uGGaAGGcCGAGGGgcgguacaccagcAGGCCGaGGCGCu -3'
miRNA:   3'- gCCaUCC-GCUCCC-------------UCCGGUcCCGCGc -5'
18347 3' -64.2 NC_004681.1 + 50361 0.68 0.271605
Target:  5'- gCGGUGGGCGcGGGAccaggacaGcGCCuugauccacaagccgAGGGCGCc -3'
miRNA:   3'- -GCCAUCCGCuCCCU--------C-CGG---------------UCCCGCGc -5'
18347 3' -64.2 NC_004681.1 + 7487 0.68 0.26907
Target:  5'- aCGGacuUGGGCGGGGGcuucuucucGGCCGcGGGCuugGCGg -3'
miRNA:   3'- -GCC---AUCCGCUCCCu--------CCGGU-CCCG---CGC- -5'
18347 3' -64.2 NC_004681.1 + 26833 0.68 0.262816
Target:  5'- -uGUAGcCGAGGuuGGCCGGGGCGgGc -3'
miRNA:   3'- gcCAUCcGCUCCcuCCGGUCCCGCgC- -5'
18347 3' -64.2 NC_004681.1 + 41958 0.7 0.216973
Target:  5'- aGGUAGGCGuGGGAcaGGUCGGcucCGCGg -3'
miRNA:   3'- gCCAUCCGCuCCCU--CCGGUCcc-GCGC- -5'
18347 3' -64.2 NC_004681.1 + 39905 0.71 0.178148
Target:  5'- aCGGUcuugccccacgAGGCGuGGGAGGCgAuGGucGCGCGg -3'
miRNA:   3'- -GCCA-----------UCCGCuCCCUCCGgU-CC--CGCGC- -5'
18347 3' -64.2 NC_004681.1 + 49652 0.73 0.118596
Target:  5'- uCGGgccugcccGCGGGGGaAGGCCAGGGCGa- -3'
miRNA:   3'- -GCCauc-----CGCUCCC-UCCGGUCCCGCgc -5'
18347 3' -64.2 NC_004681.1 + 69228 1.09 0.000249
Target:  5'- cCGGUAGGCGAGGGAGGCCAGGGCGCGg -3'
miRNA:   3'- -GCCAUCCGCUCCCUCCGGUCCCGCGC- -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.