miRNA display CGI


Results 1 - 20 of 28 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
11687 3' -54.2 NC_003102.1 + 78598 0.66 0.949868
Target:  5'- cCGUcgUCGCCGCCGuCAucuUGUaccaggaUACGCg- -3'
miRNA:   3'- -GCA--AGCGGCGGCuGUu--ACA-------GUGCGau -5'
11687 3' -54.2 NC_003102.1 + 50037 0.66 0.945938
Target:  5'- uCGggCGUccuCGCCGACGGaccggccacUGUCACGUa- -3'
miRNA:   3'- -GCaaGCG---GCGGCUGUU---------ACAGUGCGau -5'
11687 3' -54.2 NC_003102.1 + 14804 0.66 0.945938
Target:  5'- aCGaUCGCaCGCCGGCGuuuuacgaacugAUGgcgCugGCUGu -3'
miRNA:   3'- -GCaAGCG-GCGGCUGU------------UACa--GugCGAU- -5'
11687 3' -54.2 NC_003102.1 + 35048 0.66 0.931408
Target:  5'- aCG-UCGCCGUCGACGAUGagAC-Ca- -3'
miRNA:   3'- -GCaAGCGGCGGCUGUUACagUGcGau -5'
11687 3' -54.2 NC_003102.1 + 115050 0.66 0.931408
Target:  5'- cCGUU-GCCGUauCGAC-AUGUgACGCUAa -3'
miRNA:   3'- -GCAAgCGGCG--GCUGuUACAgUGCGAU- -5'
11687 3' -54.2 NC_003102.1 + 71744 0.66 0.926069
Target:  5'- uGUccUUGUCGCCGACGGcgacCACGCUGc -3'
miRNA:   3'- gCA--AGCGGCGGCUGUUaca-GUGCGAU- -5'
11687 3' -54.2 NC_003102.1 + 59348 0.66 0.926069
Target:  5'- cCGUU-GCCGCCGuCGccGUCGcCGCUc -3'
miRNA:   3'- -GCAAgCGGCGGCuGUuaCAGU-GCGAu -5'
11687 3' -54.2 NC_003102.1 + 23716 0.66 0.926069
Target:  5'- gCGUa-GCgGCCGAgaaCAGUGUCGgGCUGg -3'
miRNA:   3'- -GCAagCGgCGGCU---GUUACAGUgCGAU- -5'
11687 3' -54.2 NC_003102.1 + 21297 0.66 0.925521
Target:  5'- --aUCGCCGCCGACcgaucgaGAUGguaaCAUGCc- -3'
miRNA:   3'- gcaAGCGGCGGCUG-------UUACa---GUGCGau -5'
11687 3' -54.2 NC_003102.1 + 20467 0.67 0.920482
Target:  5'- --cUCGUCGUCGACAGUaGUauaGCGCg- -3'
miRNA:   3'- gcaAGCGGCGGCUGUUA-CAg--UGCGau -5'
11687 3' -54.2 NC_003102.1 + 15896 0.67 0.914049
Target:  5'- uGUUCGUgGCCGAuuCGAUGguggcaauggcgaUCGCGCg- -3'
miRNA:   3'- gCAAGCGgCGGCU--GUUAC-------------AGUGCGau -5'
11687 3' -54.2 NC_003102.1 + 6711 0.67 0.908563
Target:  5'- gGUgcCGCUGCCGcCGGUGUUGgCGCUGc -3'
miRNA:   3'- gCAa-GCGGCGGCuGUUACAGU-GCGAU- -5'
11687 3' -54.2 NC_003102.1 + 121639 0.67 0.90029
Target:  5'- -uUUCGCCGCCGACAucuauuauagucgagGgaaaCACGCa- -3'
miRNA:   3'- gcAAGCGGCGGCUGUua-------------Ca---GUGCGau -5'
11687 3' -54.2 NC_003102.1 + 46608 0.67 0.895666
Target:  5'- uCGUcgUCGCCGCCGACGuuccCGgGCUc -3'
miRNA:   3'- -GCA--AGCGGCGGCUGUuacaGUgCGAu -5'
11687 3' -54.2 NC_003102.1 + 59626 0.67 0.895666
Target:  5'- --aUCGgUGCUGGguuuCGGUGUCACGCUGc -3'
miRNA:   3'- gcaAGCgGCGGCU----GUUACAGUGCGAU- -5'
11687 3' -54.2 NC_003102.1 + 133742 0.68 0.881812
Target:  5'- gCGUcgcaGCCGCCG-UAGUGUCGcCGCa- -3'
miRNA:   3'- -GCAag--CGGCGGCuGUUACAGU-GCGau -5'
11687 3' -54.2 NC_003102.1 + 92977 0.68 0.874537
Target:  5'- ---cCGCCGCCGAUAccGUCuuugACGCg- -3'
miRNA:   3'- gcaaGCGGCGGCUGUuaCAG----UGCGau -5'
11687 3' -54.2 NC_003102.1 + 65418 0.68 0.874537
Target:  5'- --aUCGCCGCCuccuccgcuucGGCccGAUGUCACGUUu -3'
miRNA:   3'- gcaAGCGGCGG-----------CUG--UUACAGUGCGAu -5'
11687 3' -54.2 NC_003102.1 + 48490 0.68 0.874537
Target:  5'- --aUUGCCGgCG-CAGUGUCugGCg- -3'
miRNA:   3'- gcaAGCGGCgGCuGUUACAGugCGau -5'
11687 3' -54.2 NC_003102.1 + 100139 0.68 0.859317
Target:  5'- --aUCGUgGUCGGCGAcgGUCGCGCa- -3'
miRNA:   3'- gcaAGCGgCGGCUGUUa-CAGUGCGau -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.