miRNA display CGI


Results 1 - 20 of 73 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
19000 3' -57.2 NC_004684.1 + 41769 0.66 0.67338
Target:  5'- cCGCGCUGGguguugccGAGGUCGgccCGGCCuUCGUa -3'
miRNA:   3'- -GCGCGGCUa-------UUCCGGCa--GCUGG-AGUA- -5'
19000 3' -57.2 NC_004684.1 + 46355 0.66 0.662693
Target:  5'- aGCGUgGu---GGUCGUCGugCUCGg -3'
miRNA:   3'- gCGCGgCuauuCCGGCAGCugGAGUa -5'
19000 3' -57.2 NC_004684.1 + 62955 0.66 0.662693
Target:  5'- gCGCGCCGAcGAuGGUgG-CGugCUCGg -3'
miRNA:   3'- -GCGCGGCUaUU-CCGgCaGCugGAGUa -5'
19000 3' -57.2 NC_004684.1 + 30163 0.66 0.662693
Target:  5'- gGCGUCGGUGAguGGCCGggaGGCCg--- -3'
miRNA:   3'- gCGCGGCUAUU--CCGGCag-CUGGagua -5'
19000 3' -57.2 NC_004684.1 + 65464 0.66 0.662693
Target:  5'- uGCGCCGGUAccAGGCcCGgcaGGCCg--- -3'
miRNA:   3'- gCGCGGCUAU--UCCG-GCag-CUGGagua -5'
19000 3' -57.2 NC_004684.1 + 63934 0.66 0.662693
Target:  5'- aCGCGCCGAacUGGGuGCCGUaccacaUGGCCa--- -3'
miRNA:   3'- -GCGCGGCU--AUUC-CGGCA------GCUGGagua -5'
19000 3' -57.2 NC_004684.1 + 29506 0.66 0.65198
Target:  5'- gGCGCaCGAUGGGGUCGacguugaUGGCCUUGUc -3'
miRNA:   3'- gCGCG-GCUAUUCCGGCa------GCUGGAGUA- -5'
19000 3' -57.2 NC_004684.1 + 53714 0.66 0.65198
Target:  5'- aGCGCaugcgGGUGuccGGGCCGcgCGugCUCAa -3'
miRNA:   3'- gCGCGg----CUAU---UCCGGCa-GCugGAGUa -5'
19000 3' -57.2 NC_004684.1 + 1899 0.66 0.65198
Target:  5'- aGCagGCCGAUGAcaCCGgCGACCUCGc -3'
miRNA:   3'- gCG--CGGCUAUUccGGCaGCUGGAGUa -5'
19000 3' -57.2 NC_004684.1 + 8481 0.66 0.65198
Target:  5'- -aUGCCGucGAGGCCGUCGcggaaCUCGUg -3'
miRNA:   3'- gcGCGGCuaUUCCGGCAGCug---GAGUA- -5'
19000 3' -57.2 NC_004684.1 + 22625 0.66 0.65198
Target:  5'- gGCGCUGuggGAGGCCGccgccagcggCGACCcCAa -3'
miRNA:   3'- gCGCGGCua-UUCCGGCa---------GCUGGaGUa -5'
19000 3' -57.2 NC_004684.1 + 13299 0.66 0.65198
Target:  5'- gCGCGCCGucgGAGcaGCUGUaCGACUUCu- -3'
miRNA:   3'- -GCGCGGCua-UUC--CGGCA-GCUGGAGua -5'
19000 3' -57.2 NC_004684.1 + 13997 0.66 0.65198
Target:  5'- aGCuGUCGAUcuGGCCGUCGgugaucGCCUUg- -3'
miRNA:   3'- gCG-CGGCUAuuCCGGCAGC------UGGAGua -5'
19000 3' -57.2 NC_004684.1 + 64023 0.66 0.650908
Target:  5'- cCGCGCuugaccuCGGUGucGGCggUGUCGGCCUCGa -3'
miRNA:   3'- -GCGCG-------GCUAUu-CCG--GCAGCUGGAGUa -5'
19000 3' -57.2 NC_004684.1 + 32652 0.66 0.642323
Target:  5'- uCGUGCCGGUuggcAAGGCCuGgcggcggcauggcuaCGGCCUCGg -3'
miRNA:   3'- -GCGCGGCUA----UUCCGG-Ca--------------GCUGGAGUa -5'
19000 3' -57.2 NC_004684.1 + 6289 0.66 0.641249
Target:  5'- uCGCGCCGG--AGGCCaUCGACa---- -3'
miRNA:   3'- -GCGCGGCUauUCCGGcAGCUGgagua -5'
19000 3' -57.2 NC_004684.1 + 42317 0.66 0.630511
Target:  5'- uCGCGCCGGUGccgacaccggcGGCCacGUCGGCCa--- -3'
miRNA:   3'- -GCGCGGCUAUu----------CCGG--CAGCUGGagua -5'
19000 3' -57.2 NC_004684.1 + 59589 0.67 0.619773
Target:  5'- aCGCGcCCGGUGcuccguugGGGCCGcUGGCCgcgCAg -3'
miRNA:   3'- -GCGC-GGCUAU--------UCCGGCaGCUGGa--GUa -5'
19000 3' -57.2 NC_004684.1 + 51361 0.67 0.619773
Target:  5'- uGCGCCcaguccaccgaGGUGAGGCC-UUGGCCgUCGUc -3'
miRNA:   3'- gCGCGG-----------CUAUUCCGGcAGCUGG-AGUA- -5'
19000 3' -57.2 NC_004684.1 + 52394 0.67 0.619773
Target:  5'- gGCGgCGGUcAGGCaGUUGAUCUCGa -3'
miRNA:   3'- gCGCgGCUAuUCCGgCAGCUGGAGUa -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.