miRNA display CGI


Results 1 - 20 of 60 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
18272 3' -64.8 NC_004681.1 + 578 0.66 0.362918
Target:  5'- gCCCA-GCaucuCgGCCAGGCgccUCCCCACGa -3'
miRNA:   3'- -GGGUgCGcc--GgCGGUCCG---AGGGGUGU- -5'
18272 3' -64.8 NC_004681.1 + 2075 0.66 0.362918
Target:  5'- uUCCACGUccaGGUCGCuCAGGUccacgaagaUgCCCACGg -3'
miRNA:   3'- -GGGUGCG---CCGGCG-GUCCG---------AgGGGUGU- -5'
18272 3' -64.8 NC_004681.1 + 2830 0.67 0.283488
Target:  5'- gCCCGCGgGGaCCGCCGcuacacGGUcaccgUCCCCGa- -3'
miRNA:   3'- -GGGUGCgCC-GGCGGU------CCG-----AGGGGUgu -5'
18272 3' -64.8 NC_004681.1 + 3026 0.67 0.28612
Target:  5'- gCgCGCGUGGCggugccgucgcccaGCCAGGC-CCCCAgGa -3'
miRNA:   3'- -GgGUGCGCCGg-------------CGGUCCGaGGGGUgU- -5'
18272 3' -64.8 NC_004681.1 + 3499 0.67 0.315634
Target:  5'- gCUCGCGCGGgCGCCGcGGCcaacuucucagacuUCCgCUGCAg -3'
miRNA:   3'- -GGGUGCGCCgGCGGU-CCG--------------AGG-GGUGU- -5'
18272 3' -64.8 NC_004681.1 + 8386 0.67 0.283488
Target:  5'- uCCUugGCGGCguccgCGCCaccgAGGCUCUUCAgCAu -3'
miRNA:   3'- -GGGugCGCCG-----GCGG----UCCGAGGGGU-GU- -5'
18272 3' -64.8 NC_004681.1 + 9835 0.69 0.231464
Target:  5'- gUCCGCaGCGGCCGCaAGGCgaagacgaaccggcCCaCCGCAg -3'
miRNA:   3'- -GGGUG-CGCCGGCGgUCCGa-------------GG-GGUGU- -5'
18272 3' -64.8 NC_004681.1 + 11084 0.66 0.324998
Target:  5'- aCUugGCGuaGUCGCCcGGgUUCCCACGu -3'
miRNA:   3'- gGGugCGC--CGGCGGuCCgAGGGGUGU- -5'
18272 3' -64.8 NC_004681.1 + 12091 0.66 0.362918
Target:  5'- gCUugGUGGCCuuguaGCCAGcGgUgCCCACGa -3'
miRNA:   3'- gGGugCGCCGG-----CGGUC-CgAgGGGUGU- -5'
18272 3' -64.8 NC_004681.1 + 12188 0.68 0.258217
Target:  5'- aCCCggACcCGG-CGUCGGGCuUCCCCGCGc -3'
miRNA:   3'- -GGG--UGcGCCgGCGGUCCG-AGGGGUGU- -5'
18272 3' -64.8 NC_004681.1 + 15883 0.69 0.223799
Target:  5'- gCCugGCGGCCGCguGGgUCaCCGu- -3'
miRNA:   3'- gGGugCGCCGGCGguCCgAGgGGUgu -5'
18272 3' -64.8 NC_004681.1 + 15976 1.09 0.000191
Target:  5'- aCCCACGCGGCCGCCAGGCUCCCCACAg -3'
miRNA:   3'- -GGGUGCGCCGGCGGUCCGAGGGGUGU- -5'
18272 3' -64.8 NC_004681.1 + 16311 0.66 0.370861
Target:  5'- uCCC-CGCGGCCggaucgacggaaGCCgagcAGGCcaUCUCCGCu -3'
miRNA:   3'- -GGGuGCGCCGG------------CGG----UCCG--AGGGGUGu -5'
18272 3' -64.8 NC_004681.1 + 17799 0.67 0.317777
Target:  5'- gCCCACGCaGGCCGacaucaaCGcGGCggCCgCGCAa -3'
miRNA:   3'- -GGGUGCG-CCGGCg------GU-CCGa-GGgGUGU- -5'
18272 3' -64.8 NC_004681.1 + 18484 0.68 0.240494
Target:  5'- gCCGcCGCGGCCGCCGccuGGCcUgCCAUg -3'
miRNA:   3'- gGGU-GCGCCGGCGGU---CCGaGgGGUGu -5'
18272 3' -64.8 NC_004681.1 + 18777 0.66 0.332341
Target:  5'- gUCCAgGCGGCUGCCc-GUUgCCCugAu -3'
miRNA:   3'- -GGGUgCGCCGGCGGucCGAgGGGugU- -5'
18272 3' -64.8 NC_004681.1 + 18912 0.72 0.136118
Target:  5'- aCCugGcCGGUCcCCAGGCUCCCguCGCGg -3'
miRNA:   3'- gGGugC-GCCGGcGGUCCGAGGG--GUGU- -5'
18272 3' -64.8 NC_004681.1 + 19552 0.68 0.252193
Target:  5'- aCCUACaGCGGCauCCAGcgcuucccGUUCCCCGCAc -3'
miRNA:   3'- -GGGUG-CGCCGgcGGUC--------CGAGGGGUGU- -5'
18272 3' -64.8 NC_004681.1 + 22272 0.69 0.223799
Target:  5'- cUCCGCGUGGCgGCgUGGGCgCCCUGCc -3'
miRNA:   3'- -GGGUGCGCCGgCG-GUCCGaGGGGUGu -5'
18272 3' -64.8 NC_004681.1 + 22830 0.66 0.355093
Target:  5'- aCCCGagugGCGGCCguGCCGGuGUUCugggucugugCCCACAc -3'
miRNA:   3'- -GGGUg---CGCCGG--CGGUC-CGAG----------GGGUGU- -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.