miRNA display CGI


Results 1 - 20 of 137 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
31035 3' -56.2 NC_006560.1 + 78964 0.66 0.918522
Target:  5'- gCGGcGCCCCG-GAccccGGCCCcg-ACCCc -3'
miRNA:   3'- -GCCuUGGGGUaCUu---CCGGGacaUGGG- -5'
31035 3' -56.2 NC_006560.1 + 147012 0.66 0.918522
Target:  5'- gCGGGGCCaCCGgggccacgGggGGCCCcGagacgGCCg -3'
miRNA:   3'- -GCCUUGG-GGUa-------CuuCCGGGaCa----UGGg -5'
31035 3' -56.2 NC_006560.1 + 145104 0.66 0.918522
Target:  5'- uGGGGcagcccccgccCCCCGUGucccugcggGGGGCUCUGgcCCCc -3'
miRNA:   3'- gCCUU-----------GGGGUAC---------UUCCGGGACauGGG- -5'
31035 3' -56.2 NC_006560.1 + 120356 0.66 0.918522
Target:  5'- gCGucACCCCGUGcauguGGGCCaagaUG-GCCCa -3'
miRNA:   3'- -GCcuUGGGGUACu----UCCGGg---ACaUGGG- -5'
31035 3' -56.2 NC_006560.1 + 119550 0.66 0.918522
Target:  5'- gCGGGAcCCCCAUGGccGGGCgCgccGCCg -3'
miRNA:   3'- -GCCUU-GGGGUACU--UCCGgGacaUGGg -5'
31035 3' -56.2 NC_006560.1 + 9805 0.66 0.912756
Target:  5'- gCGGAGCUgCAgguuaacgGuGGGCCC-GUACCa -3'
miRNA:   3'- -GCCUUGGgGUa-------CuUCCGGGaCAUGGg -5'
31035 3' -56.2 NC_006560.1 + 92936 0.66 0.912756
Target:  5'- uGGAgguGgCCCAcGAggccgAGGCCCUcGUcACCCa -3'
miRNA:   3'- gCCU---UgGGGUaCU-----UCCGGGA-CA-UGGG- -5'
31035 3' -56.2 NC_006560.1 + 141497 0.66 0.912756
Target:  5'- uGGGGCCCgcUGGAccccGGCCCcGaGCCCc -3'
miRNA:   3'- gCCUUGGGguACUU----CCGGGaCaUGGG- -5'
31035 3' -56.2 NC_006560.1 + 26672 0.66 0.912756
Target:  5'- aCGGGGCCgCGggggggGAcgGGGCCCgcgacGaGCCCg -3'
miRNA:   3'- -GCCUUGGgGUa-----CU--UCCGGGa----CaUGGG- -5'
31035 3' -56.2 NC_006560.1 + 105583 0.66 0.906756
Target:  5'- uGGAuCCCUcgGggGGCgCCgc--CCCg -3'
miRNA:   3'- gCCUuGGGGuaCuuCCG-GGacauGGG- -5'
31035 3' -56.2 NC_006560.1 + 30751 0.66 0.906756
Target:  5'- cCGGc-CCCCGgcccUGAcgcAGGCCCag-GCCCa -3'
miRNA:   3'- -GCCuuGGGGU----ACU---UCCGGGacaUGGG- -5'
31035 3' -56.2 NC_006560.1 + 55070 0.66 0.906756
Target:  5'- cCGGGGCCCCG---GGGUCCgcuuuUGUGCggCCg -3'
miRNA:   3'- -GCCUUGGGGUacuUCCGGG-----ACAUG--GG- -5'
31035 3' -56.2 NC_006560.1 + 71849 0.66 0.906756
Target:  5'- gCGGGGCCUgGgcccGgcGGCCgCUGUcguacACCCu -3'
miRNA:   3'- -GCCUUGGGgUa---CuuCCGG-GACA-----UGGG- -5'
31035 3' -56.2 NC_006560.1 + 104800 0.66 0.906756
Target:  5'- uCGGaAGCCCCGUGAcgGGGCgUgcaauaaaaaaUG-GCCCa -3'
miRNA:   3'- -GCC-UUGGGGUACU--UCCGgG-----------ACaUGGG- -5'
31035 3' -56.2 NC_006560.1 + 136724 0.66 0.906756
Target:  5'- cCGGAGCugaCCCAccaGccGGCCCUG-ACCg -3'
miRNA:   3'- -GCCUUG---GGGUa--CuuCCGGGACaUGGg -5'
31035 3' -56.2 NC_006560.1 + 60824 0.66 0.904911
Target:  5'- aGGAGCCCCGcGGgcgauccccccccaAGGCCCgcu-CCUc -3'
miRNA:   3'- gCCUUGGGGUaCU--------------UCCGGGacauGGG- -5'
31035 3' -56.2 NC_006560.1 + 133415 0.66 0.900524
Target:  5'- cCGGAGCUcggggcggCCAUGGucGCCCcGgccgACCCa -3'
miRNA:   3'- -GCCUUGG--------GGUACUucCGGGaCa---UGGG- -5'
31035 3' -56.2 NC_006560.1 + 56490 0.66 0.900524
Target:  5'- aGGAGCCaCAUcaGcAGGCCCag-GCCCa -3'
miRNA:   3'- gCCUUGGgGUA--CuUCCGGGacaUGGG- -5'
31035 3' -56.2 NC_006560.1 + 74958 0.66 0.89861
Target:  5'- cCGGGcccgcgacguucucGCCgcggCCGUGGccGCCCUGaGCCCg -3'
miRNA:   3'- -GCCU--------------UGG----GGUACUucCGGGACaUGGG- -5'
31035 3' -56.2 NC_006560.1 + 208 0.66 0.894063
Target:  5'- gCGcGcGCCgCCGcggGAGGGCCCg--GCCCg -3'
miRNA:   3'- -GC-CuUGG-GGUa--CUUCCGGGacaUGGG- -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.