miRNA display CGI


Results 1 - 20 of 24 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
26033 3' -55.3 NC_005342.2 + 38968 0.66 0.675144
Target:  5'- cCCCGAgcGGCCggcaggcgcacgcgcGCGCGAUCGcaGGUUGGc -3'
miRNA:   3'- -GGGCUa-CCGG---------------CGUGUUAGC--UCGACUu -5'
26033 3' -55.3 NC_005342.2 + 39927 0.66 0.670693
Target:  5'- cCCCGAUgaaGGCCGC-CGAgcucgucggCGAGUcGAAg -3'
miRNA:   3'- -GGGCUA---CCGGCGuGUUa--------GCUCGaCUU- -5'
26033 3' -55.3 NC_005342.2 + 30561 0.66 0.670693
Target:  5'- gUCG-UGGCCGCGCugugCGAGCa--- -3'
miRNA:   3'- gGGCuACCGGCGUGuua-GCUCGacuu -5'
26033 3' -55.3 NC_005342.2 + 37780 0.66 0.648367
Target:  5'- gCCGAcGGCCGCAUGcgCGuGCg--- -3'
miRNA:   3'- gGGCUaCCGGCGUGUuaGCuCGacuu -5'
26033 3' -55.3 NC_005342.2 + 36908 0.67 0.581348
Target:  5'- uCCCGGaaugGGCCGCACGccggcgGUCGAGa---- -3'
miRNA:   3'- -GGGCUa---CCGGCGUGU------UAGCUCgacuu -5'
26033 3' -55.3 NC_005342.2 + 41112 0.67 0.570276
Target:  5'- gCUCGAUGGCUGCGCAAUgcaGuGCg--- -3'
miRNA:   3'- -GGGCUACCGGCGUGUUAg--CuCGacuu -5'
26033 3' -55.3 NC_005342.2 + 19255 0.67 0.569171
Target:  5'- aUCCGgcGGCCGCGCAGcugauugccgcguUCGAccGCgUGAAc -3'
miRNA:   3'- -GGGCuaCCGGCGUGUU-------------AGCU--CG-ACUU- -5'
26033 3' -55.3 NC_005342.2 + 14946 0.68 0.537407
Target:  5'- gCUCGAUgcGGCCGaCGCAacgcGUCGcucGGCUGAAc -3'
miRNA:   3'- -GGGCUA--CCGGC-GUGU----UAGC---UCGACUU- -5'
26033 3' -55.3 NC_005342.2 + 19513 0.68 0.526592
Target:  5'- gCUCG-UGGCCGUauggGCAAUCGuucgcaAGCUGAu -3'
miRNA:   3'- -GGGCuACCGGCG----UGUUAGC------UCGACUu -5'
26033 3' -55.3 NC_005342.2 + 45638 0.68 0.515859
Target:  5'- gCCGAgcUGGCCGCguugcgcgagaaGCAgcucGUCGAGCgGAu -3'
miRNA:   3'- gGGCU--ACCGGCG------------UGU----UAGCUCGaCUu -5'
26033 3' -55.3 NC_005342.2 + 42308 0.69 0.473883
Target:  5'- cCCUGcacAUGGCCGCA--GUCGAGUcGAAg -3'
miRNA:   3'- -GGGC---UACCGGCGUguUAGCUCGaCUU- -5'
26033 3' -55.3 NC_005342.2 + 8991 0.69 0.452541
Target:  5'- gCCUGccGGCCGCucgggguGCGGUCGAGCa--- -3'
miRNA:   3'- -GGGCuaCCGGCG-------UGUUAGCUCGacuu -5'
26033 3' -55.3 NC_005342.2 + 40142 0.69 0.443555
Target:  5'- gCCGGcgcaGGCCGCgucgaucugGCGAgCGAGCUGAAc -3'
miRNA:   3'- gGGCUa---CCGGCG---------UGUUaGCUCGACUU- -5'
26033 3' -55.3 NC_005342.2 + 41337 0.7 0.433691
Target:  5'- gCCGAgcgcgcuGCCgaGCGCGAUCGAGUUGAu -3'
miRNA:   3'- gGGCUac-----CGG--CGUGUUAGCUCGACUu -5'
26033 3' -55.3 NC_005342.2 + 44603 0.7 0.433691
Target:  5'- gCCCGAcucGCUGCGCcagcuGAUCGAGCUGc- -3'
miRNA:   3'- -GGGCUac-CGGCGUG-----UUAGCUCGACuu -5'
26033 3' -55.3 NC_005342.2 + 24936 0.7 0.423955
Target:  5'- gCCCGGagaaGCCGCgccGCAGUCGAGCUucGAGu -3'
miRNA:   3'- -GGGCUac--CGGCG---UGUUAGCUCGA--CUU- -5'
26033 3' -55.3 NC_005342.2 + 44881 0.7 0.423955
Target:  5'- gCCCGAuacUGGCCGCGCuu----GCUGAu -3'
miRNA:   3'- -GGGCU---ACCGGCGUGuuagcuCGACUu -5'
26033 3' -55.3 NC_005342.2 + 18895 0.71 0.377309
Target:  5'- aUCGAaGGCCGCcuguuugugGCGAUCGAGCUa-- -3'
miRNA:   3'- gGGCUaCCGGCG---------UGUUAGCUCGAcuu -5'
26033 3' -55.3 NC_005342.2 + 6830 0.71 0.354457
Target:  5'- aCCGgcGGCUGCGCAcugcauugcgcagccAUCGAGCgGAu -3'
miRNA:   3'- gGGCuaCCGGCGUGU---------------UAGCUCGaCUu -5'
26033 3' -55.3 NC_005342.2 + 3599 0.73 0.266076
Target:  5'- gCCUGcgGGCCGUAgCAGUCGAcCUGAu -3'
miRNA:   3'- -GGGCuaCCGGCGU-GUUAGCUcGACUu -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.