miRNA display CGI


Results 1 - 20 of 23 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
23382 3' -53.7 NC_005259.1 + 19345 0.66 0.857459
Target:  5'- aGCUACGAGGacgagGaCGCCGGgaUCAAggCCc -3'
miRNA:   3'- gUGAUGCUCCa----CgGUGGCC--AGUUa-GG- -5'
23382 3' -53.7 NC_005259.1 + 31191 0.66 0.848278
Target:  5'- ---gGCGAGGaUGCCGCCgaagaucGGgaugccguugaUCAGUCCg -3'
miRNA:   3'- gugaUGCUCC-ACGGUGG-------CC-----------AGUUAGG- -5'
23382 3' -53.7 NC_005259.1 + 4522 0.66 0.840565
Target:  5'- gCGCUGCGcGGcaCC-CCGGUCGAUUg -3'
miRNA:   3'- -GUGAUGCuCCacGGuGGCCAGUUAGg -5'
23382 3' -53.7 NC_005259.1 + 9567 0.67 0.822814
Target:  5'- cCGCgucgGCGAGGUGCuCGucaacgucgUCGGUCuggCCg -3'
miRNA:   3'- -GUGa---UGCUCCACG-GU---------GGCCAGuuaGG- -5'
23382 3' -53.7 NC_005259.1 + 14461 0.67 0.813639
Target:  5'- cCugUGCG-GGUGCCuucacGCUcguGGUcCGAUCCg -3'
miRNA:   3'- -GugAUGCuCCACGG-----UGG---CCA-GUUAGG- -5'
23382 3' -53.7 NC_005259.1 + 18122 0.67 0.804277
Target:  5'- gACUACGAGG-GCaaCAUCGG-CAAggCCa -3'
miRNA:   3'- gUGAUGCUCCaCG--GUGGCCaGUUa-GG- -5'
23382 3' -53.7 NC_005259.1 + 14861 0.67 0.783075
Target:  5'- uGCUcGCGAGGUucgcgcugcccgaGCCGCCgccguauGGUCAAgCCa -3'
miRNA:   3'- gUGA-UGCUCCA-------------CGGUGG-------CCAGUUaGG- -5'
23382 3' -53.7 NC_005259.1 + 9980 0.68 0.76517
Target:  5'- gCACcgguCGAGGUgGCCAgCCGGggacUGAUCCg -3'
miRNA:   3'- -GUGau--GCUCCA-CGGU-GGCCa---GUUAGG- -5'
23382 3' -53.7 NC_005259.1 + 57966 0.68 0.755031
Target:  5'- cCAUgguCGAGGUcGCCGggaucgugaccCCGGUCGAgCCa -3'
miRNA:   3'- -GUGau-GCUCCA-CGGU-----------GGCCAGUUaGG- -5'
23382 3' -53.7 NC_005259.1 + 3235 0.68 0.755031
Target:  5'- gCGCUACGAGGaacGUCAUgacgaGGUCGgcAUCCu -3'
miRNA:   3'- -GUGAUGCUCCa--CGGUGg----CCAGU--UAGG- -5'
23382 3' -53.7 NC_005259.1 + 57461 0.69 0.702719
Target:  5'- aCGCUGCGGcaggccGGUGgCACCGGaCAcgUCg -3'
miRNA:   3'- -GUGAUGCU------CCACgGUGGCCaGUuaGG- -5'
23382 3' -53.7 NC_005259.1 + 62210 0.69 0.681245
Target:  5'- cCGCUcacACGAGGUGCCucgaccUCGGUCucacGAUCa -3'
miRNA:   3'- -GUGA---UGCUCCACGGu-----GGCCAG----UUAGg -5'
23382 3' -53.7 NC_005259.1 + 29004 0.69 0.681245
Target:  5'- cCACgagaucgGCGAaugcGGUGUCugCGGUCGAaCCc -3'
miRNA:   3'- -GUGa------UGCU----CCACGGugGCCAGUUaGG- -5'
23382 3' -53.7 NC_005259.1 + 5083 0.69 0.681245
Target:  5'- ---gACGGgccGGUGUCACCGG-CGAUCUg -3'
miRNA:   3'- gugaUGCU---CCACGGUGGCCaGUUAGG- -5'
23382 3' -53.7 NC_005259.1 + 58771 0.7 0.63783
Target:  5'- aCGCUGCGGGcgcuGUG-CGCCGGUCGAggCg -3'
miRNA:   3'- -GUGAUGCUC----CACgGUGGCCAGUUagG- -5'
23382 3' -53.7 NC_005259.1 + 55037 0.7 0.63783
Target:  5'- gGCUGcCGAGGUGCUugccUCGGUggCAGUCUg -3'
miRNA:   3'- gUGAU-GCUCCACGGu---GGCCA--GUUAGG- -5'
23382 3' -53.7 NC_005259.1 + 28777 0.7 0.616051
Target:  5'- uGCcgACGAGGUacCCGCCGGUCGcuacgCCa -3'
miRNA:   3'- gUGa-UGCUCCAc-GGUGGCCAGUua---GG- -5'
23382 3' -53.7 NC_005259.1 + 24810 0.71 0.605178
Target:  5'- ----cCGAGGUGCC-CCGG-CAcgCCg -3'
miRNA:   3'- gugauGCUCCACGGuGGCCaGUuaGG- -5'
23382 3' -53.7 NC_005259.1 + 62865 0.71 0.594328
Target:  5'- cCGCUcggcGCGAGGUagGCCGCuCGGUCAuugagcgacgCCg -3'
miRNA:   3'- -GUGA----UGCUCCA--CGGUG-GCCAGUua--------GG- -5'
23382 3' -53.7 NC_005259.1 + 53683 0.72 0.499011
Target:  5'- gCAUcGCGAuGGUGCgACCGGUCAAc-- -3'
miRNA:   3'- -GUGaUGCU-CCACGgUGGCCAGUUagg -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.