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 + 46837 0.66 0.370861
Target:  5'- gCCC-CGCGGCaacCGCCccGGCaCCCCGa- -3'
miRNA:   3'- -GGGuGCGCCG---GCGGu-CCGaGGGGUgu -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 + 42234 0.66 0.362918
Target:  5'- uCCgCACaCGGCCGCCGaGCUgcuggUCCCGCc -3'
miRNA:   3'- -GG-GUGcGCCGGCGGUcCGA-----GGGGUGu -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 + 578 0.66 0.362918
Target:  5'- gCCCA-GCaucuCgGCCAGGCgccUCCCCACGa -3'
miRNA:   3'- -GGGUgCGcc--GgCGGUCCG---AGGGGUGU- -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 + 67034 0.66 0.355093
Target:  5'- -gCGCGCGGCa-CCAGGg-CCgCCACAg -3'
miRNA:   3'- ggGUGCGCCGgcGGUCCgaGG-GGUGU- -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'
18272 3' -64.8 NC_004681.1 + 65074 0.66 0.355093
Target:  5'- cCCCGCucggGUGGUCGCCgAGGUcggCCUgGCAa -3'
miRNA:   3'- -GGGUG----CGCCGGCGG-UCCGa--GGGgUGU- -5'
18272 3' -64.8 NC_004681.1 + 28404 0.66 0.347389
Target:  5'- gCCugGCGGUCaCCccGGCU-CCCGCGg -3'
miRNA:   3'- gGGugCGCCGGcGGu-CCGAgGGGUGU- -5'
18272 3' -64.8 NC_004681.1 + 33380 0.66 0.347389
Target:  5'- gUCGCGCGcGCCGUguGGCaCCugaaCCGCAu -3'
miRNA:   3'- gGGUGCGC-CGGCGguCCGaGG----GGUGU- -5'
18272 3' -64.8 NC_004681.1 + 62455 0.66 0.339804
Target:  5'- aCCCGaaUGGCCGagGGGCacgaCCCCACGg -3'
miRNA:   3'- -GGGUgcGCCGGCggUCCGa---GGGGUGU- -5'
18272 3' -64.8 NC_004681.1 + 59203 0.66 0.337552
Target:  5'- uCCCGgGCGGCuCGuCCAGcuuccagaacgucaGCUCCUCAa- -3'
miRNA:   3'- -GGGUgCGCCG-GC-GGUC--------------CGAGGGGUgu -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 + 32322 0.66 0.324998
Target:  5'- gCCGCGCuGCCGCUgcgauGGCcugCUCCACc -3'
miRNA:   3'- gGGUGCGcCGGCGGu----CCGa--GGGGUGu -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 + 45043 0.66 0.324998
Target:  5'- gCCCGagcuCGCGGUgGC--GGCUCCaCCGCGu -3'
miRNA:   3'- -GGGU----GCGCCGgCGguCCGAGG-GGUGU- -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 + 3499 0.67 0.315634
Target:  5'- gCUCGCGCGGgCGCCGcGGCcaacuucucagacuUCCgCUGCAg -3'
miRNA:   3'- -GGGUGCGCCgGCGGU-CCG--------------AGG-GGUGU- -5'
18272 3' -64.8 NC_004681.1 + 28524 0.67 0.312794
Target:  5'- cCCCAcgcgagcuccaucucCGCGGgagccggggugaCCGCCAGGCcauugacugggguUCCCCAg- -3'
miRNA:   3'- -GGGU---------------GCGCC------------GGCGGUCCG-------------AGGGGUgu -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.