miRNA display CGI


Results 1 - 20 of 21 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
8802 3' -48 NC_002484.1 + 31881 0.66 0.985187
Target:  5'- -aUCAUCA-GCGGGgcacuGGAGgGCGGCa -3'
miRNA:   3'- cgAGUAGUcCGCUUau---CUUUgCGUCG- -5'
8802 3' -48 NC_002484.1 + 20873 0.66 0.980841
Target:  5'- cGCUC-UCcggAGGUGAA-AGAAGagguUGCAGCa -3'
miRNA:   3'- -CGAGuAG---UCCGCUUaUCUUU----GCGUCG- -5'
8802 3' -48 NC_002484.1 + 32210 0.67 0.972627
Target:  5'- aGCUCGaagccgaguccCAGGCGcuaagGGAGgaagucGCGCAGCa -3'
miRNA:   3'- -CGAGUa----------GUCCGCuua--UCUU------UGCGUCG- -5'
8802 3' -48 NC_002484.1 + 35359 0.67 0.969394
Target:  5'- -aUCAUCgcAGGCGAGcugccuUAcGAGcACGCGGCu -3'
miRNA:   3'- cgAGUAG--UCCGCUU------AU-CUU-UGCGUCG- -5'
8802 3' -48 NC_002484.1 + 4867 0.67 0.965898
Target:  5'- aGC-CGUCgauggAGGUG-AUGGccGAGCGCGGCa -3'
miRNA:   3'- -CGaGUAG-----UCCGCuUAUC--UUUGCGUCG- -5'
8802 3' -48 NC_002484.1 + 43011 0.67 0.965898
Target:  5'- uGCacagUAUCAGGaacaGAacAUGGAgGAUGCAGCa -3'
miRNA:   3'- -CGa---GUAGUCCg---CU--UAUCU-UUGCGUCG- -5'
8802 3' -48 NC_002484.1 + 4060 0.67 0.965534
Target:  5'- -aUCAgcCAGGCGuuAUGGAucaucaggaaggcGGCGCGGCc -3'
miRNA:   3'- cgAGUa-GUCCGCu-UAUCU-------------UUGCGUCG- -5'
8802 3' -48 NC_002484.1 + 40379 0.67 0.958082
Target:  5'- cGCUgGUUcuGCGAAUGcGAagAAUGCGGCg -3'
miRNA:   3'- -CGAgUAGucCGCUUAU-CU--UUGCGUCG- -5'
8802 3' -48 NC_002484.1 + 52338 0.68 0.953747
Target:  5'- uUUCAUCAGGC-AGUccucuuuuucAGuucGCGCAGCu -3'
miRNA:   3'- cGAGUAGUCCGcUUA----------UCuu-UGCGUCG- -5'
8802 3' -48 NC_002484.1 + 18565 0.68 0.94912
Target:  5'- aGUUCGUCGcGCGAAcGGAcgcCGCGGUa -3'
miRNA:   3'- -CGAGUAGUcCGCUUaUCUuu-GCGUCG- -5'
8802 3' -48 NC_002484.1 + 51114 0.68 0.944195
Target:  5'- cGC-CGUCAGGCGuAUGGAucagguggaaguGAC-CGGCc -3'
miRNA:   3'- -CGaGUAGUCCGCuUAUCU------------UUGcGUCG- -5'
8802 3' -48 NC_002484.1 + 870 0.68 0.933437
Target:  5'- cGC-CAUCGgcGGCGAAUAGGuaaauGCcucguGCGGCa -3'
miRNA:   3'- -CGaGUAGU--CCGCUUAUCUu----UG-----CGUCG- -5'
8802 3' -48 NC_002484.1 + 41836 0.69 0.9276
Target:  5'- uGCUCGUCgAGuGCGGAaucuGGACGCAGg -3'
miRNA:   3'- -CGAGUAG-UC-CGCUUauc-UUUGCGUCg -5'
8802 3' -48 NC_002484.1 + 44138 0.69 0.908251
Target:  5'- uGC-CAUCAcuuGGCGAGUu----CGCAGCg -3'
miRNA:   3'- -CGaGUAGU---CCGCUUAucuuuGCGUCG- -5'
8802 3' -48 NC_002484.1 + 29601 0.7 0.893838
Target:  5'- gGCUCA--AGGCGGAgaacgAGGugcuGCGCAGg -3'
miRNA:   3'- -CGAGUagUCCGCUUa----UCUu---UGCGUCg -5'
8802 3' -48 NC_002484.1 + 7749 0.7 0.886188
Target:  5'- cGUUCGUCAgGGCGG--GGuuAgGCGGCu -3'
miRNA:   3'- -CGAGUAGU-CCGCUuaUCuuUgCGUCG- -5'
8802 3' -48 NC_002484.1 + 55837 0.73 0.746342
Target:  5'- aUUCAUCAGGaUGGAgggccagcaguccGGAACGCAGCa -3'
miRNA:   3'- cGAGUAGUCC-GCUUau-----------CUUUGCGUCG- -5'
8802 3' -48 NC_002484.1 + 38854 0.76 0.581616
Target:  5'- gGCUCA--AGGCGGAgaacGAGACGCuGCg -3'
miRNA:   3'- -CGAGUagUCCGCUUau--CUUUGCGuCG- -5'
8802 3' -48 NC_002484.1 + 20039 0.76 0.581616
Target:  5'- cGUaUAUCAGGCcguGAcgguUAGGAACGCAGCa -3'
miRNA:   3'- -CGaGUAGUCCG---CUu---AUCUUUGCGUCG- -5'
8802 3' -48 NC_002484.1 + 32632 0.78 0.481167
Target:  5'- aGUUCAUCGGGCGccuaucuGAAuuccucGCGCAGCg -3'
miRNA:   3'- -CGAGUAGUCCGCuuau---CUU------UGCGUCG- -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.