miRNA display CGI


Results 1 - 20 of 27 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
23028 3' -57.6 NC_005178.1 + 10853 0.66 0.506884
Target:  5'- -cGCGgCUGGGcucgGCCAGGAugGCGGCgGCGu -3'
miRNA:   3'- caUGCgGGCCU----UGGUCCU--CGCUG-UGC- -5'
23028 3' -57.6 NC_005178.1 + 26975 0.66 0.486051
Target:  5'- -cGCGCCUGGAucgcuACCuGGAGgaCGAgGCa -3'
miRNA:   3'- caUGCGGGCCU-----UGGuCCUC--GCUgUGc -5'
23028 3' -57.6 NC_005178.1 + 3115 0.66 0.479881
Target:  5'- -cAUGUCCGGGcggcggaccuucggcACCAGG-GCGcCACGc -3'
miRNA:   3'- caUGCGGGCCU---------------UGGUCCuCGCuGUGC- -5'
23028 3' -57.6 NC_005178.1 + 31223 0.66 0.465634
Target:  5'- cGUuCGCCCcGGACUGGG-GCGACAg- -3'
miRNA:   3'- -CAuGCGGGcCUUGGUCCuCGCUGUgc -5'
23028 3' -57.6 NC_005178.1 + 28982 0.67 0.455594
Target:  5'- -cGCGCCCcuGGCCuGG-GCGGCACc -3'
miRNA:   3'- caUGCGGGccUUGGuCCuCGCUGUGc -5'
23028 3' -57.6 NC_005178.1 + 23277 0.67 0.435871
Target:  5'- aUGCGCUCG--ACCAGGAGCGucucCAgGa -3'
miRNA:   3'- cAUGCGGGCcuUGGUCCUCGCu---GUgC- -5'
23028 3' -57.6 NC_005178.1 + 16653 0.68 0.397956
Target:  5'- -gACGCCCaGcuuGACCAGGGGCGGuaaugacguugcCAUGg -3'
miRNA:   3'- caUGCGGGcC---UUGGUCCUCGCU------------GUGC- -5'
23028 3' -57.6 NC_005178.1 + 14644 0.68 0.388812
Target:  5'- --cCGCgCUGGAguucuACCAGGAGCG-CGCc -3'
miRNA:   3'- cauGCG-GGCCU-----UGGUCCUCGCuGUGc -5'
23028 3' -57.6 NC_005178.1 + 16602 0.68 0.377134
Target:  5'- ---gGCCCGGuccuugaggucgaaGACCAGGcgGGgGGCGCGg -3'
miRNA:   3'- caugCGGGCC--------------UUGGUCC--UCgCUGUGC- -5'
23028 3' -57.6 NC_005178.1 + 20809 0.68 0.370066
Target:  5'- gGUACGCCCGgcgcucugcuguuGggUCAGG-GCGGCGa- -3'
miRNA:   3'- -CAUGCGGGC-------------CuuGGUCCuCGCUGUgc -5'
23028 3' -57.6 NC_005178.1 + 26775 0.68 0.365695
Target:  5'- -aACGCCUGGAGCaacugaccaAGGGGCaggccuuccagccggGACGCGc -3'
miRNA:   3'- caUGCGGGCCUUGg--------UCCUCG---------------CUGUGC- -5'
23028 3' -57.6 NC_005178.1 + 14385 0.69 0.320786
Target:  5'- -aACGUCCGcAGCCcGGAGCaGCGCGa -3'
miRNA:   3'- caUGCGGGCcUUGGuCCUCGcUGUGC- -5'
23028 3' -57.6 NC_005178.1 + 3003 0.69 0.312937
Target:  5'- cGUGCgcaGCCUGGAgcgcuuccuggACCAGGccgAGCGugGCGc -3'
miRNA:   3'- -CAUG---CGGGCCU-----------UGGUCC---UCGCugUGC- -5'
23028 3' -57.6 NC_005178.1 + 21941 0.69 0.312937
Target:  5'- -aGCGCCgGGccGACCAGGAGCacguuggggGAgACGu -3'
miRNA:   3'- caUGCGGgCC--UUGGUCCUCG---------CUgUGC- -5'
23028 3' -57.6 NC_005178.1 + 23443 0.69 0.305234
Target:  5'- -gACGCCCaGGGcgacgGCCAGGGcgccCGGCGCGa -3'
miRNA:   3'- caUGCGGG-CCU-----UGGUCCUc---GCUGUGC- -5'
23028 3' -57.6 NC_005178.1 + 22741 0.7 0.297678
Target:  5'- -gACGuCCUGGAacACCAGGAGCcGCAa- -3'
miRNA:   3'- caUGC-GGGCCU--UGGUCCUCGcUGUgc -5'
23028 3' -57.6 NC_005178.1 + 28296 0.7 0.290267
Target:  5'- -gGCGCugcgggagcugCCGGGGCCGcuGGAGUGGCugGu -3'
miRNA:   3'- caUGCG-----------GGCCUUGGU--CCUCGCUGugC- -5'
23028 3' -57.6 NC_005178.1 + 29042 0.7 0.283002
Target:  5'- gGUGcCGCCCaG-GCCAGGGGCG-CGCa -3'
miRNA:   3'- -CAU-GCGGGcCuUGGUCCUCGCuGUGc -5'
23028 3' -57.6 NC_005178.1 + 16917 0.7 0.283002
Target:  5'- -cGCGgCUGaucacauCCAGGAGCGGCGCGa -3'
miRNA:   3'- caUGCgGGCcuu----GGUCCUCGCUGUGC- -5'
23028 3' -57.6 NC_005178.1 + 3756 0.7 0.275881
Target:  5'- -gACGCgCCGGGccaucGCCAaGGGCGGCACc -3'
miRNA:   3'- caUGCG-GGCCU-----UGGUcCUCGCUGUGc -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.