miRNA display CGI


Results 1 - 20 of 33 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
27101 3' -57.9 NC_005832.1 + 13006 0.74 0.290586
Target:  5'- cUGGgGUCCAGGCCccUGGucuugacgaGCCUCUCGg -3'
miRNA:   3'- -ACCgCGGGUCUGGuuACC---------UGGAGAGC- -5'
27101 3' -57.9 NC_005832.1 + 74082 0.66 0.754568
Target:  5'- cGGUGUCCAGGCUggGAUGGACaa--CGa -3'
miRNA:   3'- aCCGCGGGUCUGG--UUACCUGgagaGC- -5'
27101 3' -57.9 NC_005832.1 + 85929 0.66 0.754568
Target:  5'- aGGCuCCUGGACCuuuugagGGGCCUCa-- -3'
miRNA:   3'- aCCGcGGGUCUGGuua----CCUGGAGagc -5'
27101 3' -57.9 NC_005832.1 + 66687 0.66 0.734929
Target:  5'- cUGGaaGCCCAGGCCGcggccgGGACCgugUUUGg -3'
miRNA:   3'- -ACCg-CGGGUCUGGUua----CCUGGa--GAGC- -5'
27101 3' -57.9 NC_005832.1 + 79892 0.67 0.704807
Target:  5'- gGGCGgCCAuGGCCuc-GGACCcUUCGg -3'
miRNA:   3'- aCCGCgGGU-CUGGuuaCCUGGaGAGC- -5'
27101 3' -57.9 NC_005832.1 + 53234 0.67 0.703791
Target:  5'- uUGGUGuaaucucuCCCAGucucggaACCGGUGGcCCUCUUGa -3'
miRNA:   3'- -ACCGC--------GGGUC-------UGGUUACCuGGAGAGC- -5'
27101 3' -57.9 NC_005832.1 + 47726 0.67 0.663805
Target:  5'- aGGUcacaCAGGCCAGagacgagGGACCUCUCGu -3'
miRNA:   3'- aCCGcgg-GUCUGGUUa------CCUGGAGAGC- -5'
27101 3' -57.9 NC_005832.1 + 27864 0.68 0.653467
Target:  5'- aGGCGgCCGGGCaggcccUGGACCUCc-- -3'
miRNA:   3'- aCCGCgGGUCUGguu---ACCUGGAGagc -5'
27101 3' -57.9 NC_005832.1 + 48855 0.68 0.62238
Target:  5'- -uGCGCCCaAGGCCGucgaGUGcGACCUcCUCu -3'
miRNA:   3'- acCGCGGG-UCUGGU----UAC-CUGGA-GAGc -5'
27101 3' -57.9 NC_005832.1 + 78604 0.68 0.605815
Target:  5'- cGGCGCCCAccGGCUcguGccccuacaucuccgcUGGACCUUUCa -3'
miRNA:   3'- aCCGCGGGU--CUGGu--U---------------ACCUGGAGAGc -5'
27101 3' -57.9 NC_005832.1 + 87073 0.69 0.560615
Target:  5'- cGGCGacaCCAGGCUggUGGcccACCUCa-- -3'
miRNA:   3'- aCCGCg--GGUCUGGuuACC---UGGAGagc -5'
27101 3' -57.9 NC_005832.1 + 38659 0.69 0.560615
Target:  5'- gUGG-GUCguGACCGA-GGACCUCaUCGa -3'
miRNA:   3'- -ACCgCGGguCUGGUUaCCUGGAG-AGC- -5'
27101 3' -57.9 NC_005832.1 + 5565 0.7 0.530326
Target:  5'- cGGUGCaCAGGCCcuccgAGUGGAggcCCUCUCa -3'
miRNA:   3'- aCCGCGgGUCUGG-----UUACCU---GGAGAGc -5'
27101 3' -57.9 NC_005832.1 + 29251 0.72 0.389707
Target:  5'- cGGCGCCCGG-CCuggGGucaaacaACCUCUUGg -3'
miRNA:   3'- aCCGCGGGUCuGGuuaCC-------UGGAGAGC- -5'
27101 3' -57.9 NC_005832.1 + 74579 0.69 0.569799
Target:  5'- cGGCGUCCAGGCCcGUcaGGuacuuuaGCCUCUUu -3'
miRNA:   3'- aCCGCGGGUCUGGuUA--CC-------UGGAGAGc -5'
27101 3' -57.9 NC_005832.1 + 33080 0.7 0.510467
Target:  5'- gUGGcCGUCCAGuucCUGAUGGGCCUCg-- -3'
miRNA:   3'- -ACC-GCGGGUCu--GGUUACCUGGAGagc -5'
27101 3' -57.9 NC_005832.1 + 47623 0.7 0.481284
Target:  5'- gGGCGUCguGG-CAGUGGACCUgCUCc -3'
miRNA:   3'- aCCGCGGguCUgGUUACCUGGA-GAGc -5'
27101 3' -57.9 NC_005832.1 + 39934 0.74 0.297513
Target:  5'- aGGCGCCCcgcuaGGACCGGUuGGACCcaccgCUCc -3'
miRNA:   3'- aCCGCGGG-----UCUGGUUA-CCUGGa----GAGc -5'
27101 3' -57.9 NC_005832.1 + 15649 0.76 0.228184
Target:  5'- aGGUGCCCAGGCCAAUcuGCCUCa-- -3'
miRNA:   3'- aCCGCGGGUCUGGUUAccUGGAGagc -5'
27101 3' -57.9 NC_005832.1 + 84321 0.66 0.764226
Target:  5'- cGGCugcucGCCUAGACag--GGAgCCUCUCc -3'
miRNA:   3'- aCCG-----CGGGUCUGguuaCCU-GGAGAGc -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.