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
28036 5' -54.7 NC_005887.1 + 37822 0.65 0.718773
Target:  5'- ---cAUCGCCUcGACCGGGacgccgccguaguCGgcGAGCa -3'
miRNA:   3'- cugcUAGCGGA-CUGGCCU-------------GCaaCUCG- -5'
28036 5' -54.7 NC_005887.1 + 5881 0.66 0.687039
Target:  5'- gGGCGAcaGCUacGACCGGAaCGUcGAGCu -3'
miRNA:   3'- -CUGCUagCGGa-CUGGCCU-GCAaCUCG- -5'
28036 5' -54.7 NC_005887.1 + 18033 0.66 0.675976
Target:  5'- uACGcgCGCCgGACUGacggccGACGaUUGGGCg -3'
miRNA:   3'- cUGCuaGCGGaCUGGC------CUGC-AACUCG- -5'
28036 5' -54.7 NC_005887.1 + 25950 0.66 0.664871
Target:  5'- aGACGGUgGCCcGGCa-GACGccGAGCa -3'
miRNA:   3'- -CUGCUAgCGGaCUGgcCUGCaaCUCG- -5'
28036 5' -54.7 NC_005887.1 + 6220 0.67 0.642576
Target:  5'- aGACGAUCaccgaGCCacGCCGGACGUUcGAaGUc -3'
miRNA:   3'- -CUGCUAG-----CGGacUGGCCUGCAA-CU-CG- -5'
28036 5' -54.7 NC_005887.1 + 26191 0.67 0.631409
Target:  5'- -uCGAUCGCUcGcgcacucggcgcGCCGGugGUUG-GCg -3'
miRNA:   3'- cuGCUAGCGGaC------------UGGCCugCAACuCG- -5'
28036 5' -54.7 NC_005887.1 + 15450 0.67 0.620242
Target:  5'- gGACGAcgUCGCCgcgaUGACCGcGcaccaagacGCGUUcGAGCu -3'
miRNA:   3'- -CUGCU--AGCGG----ACUGGC-C---------UGCAA-CUCG- -5'
28036 5' -54.7 NC_005887.1 + 15024 0.68 0.599063
Target:  5'- uGGCGcaGUCGaCgUGGCCGGACGagugcgagaaguggGAGCa -3'
miRNA:   3'- -CUGC--UAGC-GgACUGGCCUGCaa------------CUCG- -5'
28036 5' -54.7 NC_005887.1 + 10632 0.68 0.586845
Target:  5'- cGCGGa-GCCUGGgCGGcguCGUUGGGCc -3'
miRNA:   3'- cUGCUagCGGACUgGCCu--GCAACUCG- -5'
28036 5' -54.7 NC_005887.1 + 6418 0.68 0.586845
Target:  5'- uGAUcAUCGCCgugUGGCCGGACGgcc-GCg -3'
miRNA:   3'- -CUGcUAGCGG---ACUGGCCUGCaacuCG- -5'
28036 5' -54.7 NC_005887.1 + 30327 0.69 0.521323
Target:  5'- cGACGGUUGCgaGcggcgugcgugcGCCGGAUGUcugcaacgUGGGCg -3'
miRNA:   3'- -CUGCUAGCGgaC------------UGGCCUGCA--------ACUCG- -5'
28036 5' -54.7 NC_005887.1 + 11322 0.69 0.521323
Target:  5'- aGCGAgCGCCgcaaccgcgacGGCCGGuACGcUGAGCa -3'
miRNA:   3'- cUGCUaGCGGa----------CUGGCC-UGCaACUCG- -5'
28036 5' -54.7 NC_005887.1 + 30002 0.69 0.51066
Target:  5'- cACGucacCGCCUGGCCGGcgagcgACGUacgcaguucgcUGAGCu -3'
miRNA:   3'- cUGCua--GCGGACUGGCC------UGCA-----------ACUCG- -5'
28036 5' -54.7 NC_005887.1 + 10070 0.7 0.448812
Target:  5'- cGACGAUCGCCccgugugGACCGGAUcaUGcccguGCc -3'
miRNA:   3'- -CUGCUAGCGGa------CUGGCCUGcaACu----CG- -5'
28036 5' -54.7 NC_005887.1 + 4893 0.71 0.419475
Target:  5'- cGAUGGUCGCCgagGGCCGGcGCGaggUGuucguGCg -3'
miRNA:   3'- -CUGCUAGCGGa--CUGGCC-UGCa--ACu----CG- -5'
28036 5' -54.7 NC_005887.1 + 12084 0.72 0.373264
Target:  5'- cACGAUCGUCgcGCCGGACGgcaAGCg -3'
miRNA:   3'- cUGCUAGCGGacUGGCCUGCaacUCG- -5'
28036 5' -54.7 NC_005887.1 + 40330 0.72 0.373264
Target:  5'- aGACGuUCGCCgccgaaaugGACUGGcCGUcGAGCg -3'
miRNA:   3'- -CUGCuAGCGGa--------CUGGCCuGCAaCUCG- -5'
28036 5' -54.7 NC_005887.1 + 36865 0.72 0.364446
Target:  5'- cGACGcgCGCCUGuucCUGGugGUcaacgugGGGCa -3'
miRNA:   3'- -CUGCuaGCGGACu--GGCCugCAa------CUCG- -5'
28036 5' -54.7 NC_005887.1 + 32615 0.72 0.32982
Target:  5'- cACGcaaGCUUGuucagcuGCCGGGCGUUGAGCu -3'
miRNA:   3'- cUGCuagCGGAC-------UGGCCUGCAACUCG- -5'
28036 5' -54.7 NC_005887.1 + 1611 0.76 0.186038
Target:  5'- cGGCGAUCGCCUcGACgCGGGCGgcGAc- -3'
miRNA:   3'- -CUGCUAGCGGA-CUG-GCCUGCaaCUcg -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.