miRNA display CGI


Results 1 - 20 of 55 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
21544 3' -57.9 NC_004812.1 + 109212 0.66 0.831726
Target:  5'- --aUGGUAcgGUGcCCcGGCGGGGCGa -3'
miRNA:   3'- aacAUCAUagCGCaGGuCCGCCCCGC- -5'
21544 3' -57.9 NC_004812.1 + 83065 0.66 0.831726
Target:  5'- ---aGGgcUCGCGUCa--GCGGGGUGa -3'
miRNA:   3'- aacaUCauAGCGCAGgucCGCCCCGC- -5'
21544 3' -57.9 NC_004812.1 + 114272 0.66 0.831726
Target:  5'- -aGUAGgccGUCGCGagcuUCUGGaGCGGGGUc -3'
miRNA:   3'- aaCAUCa--UAGCGC----AGGUC-CGCCCCGc -5'
21544 3' -57.9 NC_004812.1 + 60589 0.66 0.823356
Target:  5'- --------cCGCGUCCAGGUcccguagcggagGGGGCGc -3'
miRNA:   3'- aacaucauaGCGCAGGUCCG------------CCCCGC- -5'
21544 3' -57.9 NC_004812.1 + 46614 0.66 0.823356
Target:  5'- -aGUAGcagggAUaCGCGUCCGGGuCGacgcGGGCGc -3'
miRNA:   3'- aaCAUCa----UA-GCGCAGGUCC-GC----CCCGC- -5'
21544 3' -57.9 NC_004812.1 + 22136 0.66 0.814815
Target:  5'- -gGUAGcUGUCGCGgaucaggcgCCgcAGGCGGuuGGCGg -3'
miRNA:   3'- aaCAUC-AUAGCGCa--------GG--UCCGCC--CCGC- -5'
21544 3' -57.9 NC_004812.1 + 50826 0.66 0.814815
Target:  5'- cUGUGGUggCGCacGUCUacuGGGCGGucaGGCGg -3'
miRNA:   3'- aACAUCAuaGCG--CAGG---UCCGCC---CCGC- -5'
21544 3' -57.9 NC_004812.1 + 147205 0.66 0.806111
Target:  5'- aUGUGcUggUGgGUCUguAGGCGGGGCGc -3'
miRNA:   3'- aACAUcAuaGCgCAGG--UCCGCCCCGC- -5'
21544 3' -57.9 NC_004812.1 + 68339 0.66 0.806111
Target:  5'- cUGg---GUCGCGUU--GGCGGGGUGg -3'
miRNA:   3'- aACaucaUAGCGCAGguCCGCCCCGC- -5'
21544 3' -57.9 NC_004812.1 + 21968 0.67 0.797251
Target:  5'- -cGUGGUGcUCGCG-CgGGGaggGGGGCa -3'
miRNA:   3'- aaCAUCAU-AGCGCaGgUCCg--CCCCGc -5'
21544 3' -57.9 NC_004812.1 + 22876 0.67 0.791864
Target:  5'- cUUGUGGUAcgggaacccgaccguUCGUGUCUGGcGCgugccugcgGGGGCGg -3'
miRNA:   3'- -AACAUCAU---------------AGCGCAGGUC-CG---------CCCCGC- -5'
21544 3' -57.9 NC_004812.1 + 15123 0.67 0.788244
Target:  5'- gUUGUAGcg-CGCGUCC-GGCcgcgucgccucgGGGGCu -3'
miRNA:   3'- -AACAUCauaGCGCAGGuCCG------------CCCCGc -5'
21544 3' -57.9 NC_004812.1 + 97232 0.67 0.788244
Target:  5'- -cGUGGggccUCGCG-CCcuGCGGGGCc -3'
miRNA:   3'- aaCAUCau--AGCGCaGGucCGCCCCGc -5'
21544 3' -57.9 NC_004812.1 + 91121 0.67 0.788244
Target:  5'- -cGUGGgGUCGCuUggGGGCGGGGCc -3'
miRNA:   3'- aaCAUCaUAGCGcAggUCCGCCCCGc -5'
21544 3' -57.9 NC_004812.1 + 79904 0.67 0.788244
Target:  5'- -cGUGGgcggggcAUUGCGUCuccagCAGGCccGGGGCGg -3'
miRNA:   3'- aaCAUCa------UAGCGCAG-----GUCCG--CCCCGC- -5'
21544 3' -57.9 NC_004812.1 + 135005 0.67 0.779099
Target:  5'- --aUGGUGUCGguguaccaGUCCcugGGGCGGGuGCGg -3'
miRNA:   3'- aacAUCAUAGCg-------CAGG---UCCGCCC-CGC- -5'
21544 3' -57.9 NC_004812.1 + 55058 0.67 0.779099
Target:  5'- gUGUGGUGgcgaugaugagcUCGCGgauauaucgCCAGGCGgcccgcuggguGGGCGu -3'
miRNA:   3'- aACAUCAU------------AGCGCa--------GGUCCGC-----------CCCGC- -5'
21544 3' -57.9 NC_004812.1 + 10374 0.67 0.769824
Target:  5'- gUGUAGUAcgccUCGgGggucugggCC-GGCGGGGUGa -3'
miRNA:   3'- aACAUCAU----AGCgCa-------GGuCCGCCCCGC- -5'
21544 3' -57.9 NC_004812.1 + 3085 0.67 0.760428
Target:  5'- ------cGUCG-GUCCaggcGGGCGGGGCGg -3'
miRNA:   3'- aacaucaUAGCgCAGG----UCCGCCCCGC- -5'
21544 3' -57.9 NC_004812.1 + 128594 0.67 0.760428
Target:  5'- ------cGUCG-GUCCaggcGGGCGGGGCGg -3'
miRNA:   3'- aacaucaUAGCgCAGG----UCCGCCCCGC- -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.