miRNA display CGI


Results 21 - 39 of 39 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
26553 5' -53.5 NC_005357.1 + 13446 0.68 0.591398
Target:  5'- cCCGcCAGCUUGGCGGccucgGGCGCg---- -3'
miRNA:   3'- -GGUuGUCGAACCGUUa----CCGCGggaac -5'
26553 5' -53.5 NC_005357.1 + 38704 0.68 0.557383
Target:  5'- aCCAcCGGCgugaacGGCAcgGGCGCCa--- -3'
miRNA:   3'- -GGUuGUCGaa----CCGUuaCCGCGGgaac -5'
26553 5' -53.5 NC_005357.1 + 13166 0.68 0.557383
Target:  5'- gUCGGcCAGUgucGGCcgcgcugGGCGCCCUUGg -3'
miRNA:   3'- -GGUU-GUCGaa-CCGuua----CCGCGGGAAC- -5'
26553 5' -53.5 NC_005357.1 + 26364 0.69 0.546163
Target:  5'- aUCGGCAGauuuuuGCAAUcGCGCCCUUGg -3'
miRNA:   3'- -GGUUGUCgaac--CGUUAcCGCGGGAAC- -5'
26553 5' -53.5 NC_005357.1 + 6157 0.69 0.52395
Target:  5'- cCCAGgGGUgaGGCAcgGGCaCCCUUa -3'
miRNA:   3'- -GGUUgUCGaaCCGUuaCCGcGGGAAc -5'
26553 5' -53.5 NC_005357.1 + 30014 0.69 0.502091
Target:  5'- uCCAACuGCacGGCc---GCGCCCUUGg -3'
miRNA:   3'- -GGUUGuCGaaCCGuuacCGCGGGAAC- -5'
26553 5' -53.5 NC_005357.1 + 11460 0.7 0.48064
Target:  5'- aCCGGCAGCUuuucagUGGCGuauucgAUGGuCGCCUg-- -3'
miRNA:   3'- -GGUUGUCGA------ACCGU------UACC-GCGGGaac -5'
26553 5' -53.5 NC_005357.1 + 618 0.7 0.48064
Target:  5'- gCCAGCAGCgccgUGGacacGGCGUCCg-- -3'
miRNA:   3'- -GGUUGUCGa---ACCguuaCCGCGGGaac -5'
26553 5' -53.5 NC_005357.1 + 12014 0.71 0.419184
Target:  5'- gCCAGCAGCgcGGCcGUGGCcggcgaggucuuGCCCa-- -3'
miRNA:   3'- -GGUUGUCGaaCCGuUACCG------------CGGGaac -5'
26553 5' -53.5 NC_005357.1 + 40441 0.71 0.419184
Target:  5'- cUCAAgauCAGCcacUGGCAgGUGGCGCCCg-- -3'
miRNA:   3'- -GGUU---GUCGa--ACCGU-UACCGCGGGaac -5'
26553 5' -53.5 NC_005357.1 + 8475 0.71 0.403615
Target:  5'- uCCAGCAGaUUGGCGAUcuggucGGCauaguccacgucgauGCCCUUGa -3'
miRNA:   3'- -GGUUGUCgAACCGUUA------CCG---------------CGGGAAC- -5'
26553 5' -53.5 NC_005357.1 + 20007 0.71 0.390295
Target:  5'- gCCAACuuGCUcGGC-AUGGCGCgCCUg- -3'
miRNA:   3'- -GGUUGu-CGAaCCGuUACCGCG-GGAac -5'
26553 5' -53.5 NC_005357.1 + 3161 0.72 0.371772
Target:  5'- aCCAaaaucGCAGCaUGGCAAgcccGGCGUCCg-- -3'
miRNA:   3'- -GGU-----UGUCGaACCGUUa---CCGCGGGaac -5'
26553 5' -53.5 NC_005357.1 + 2598 0.72 0.371772
Target:  5'- gCCAGCAGgUUGGCGA-GGuCGUacuCCUUGa -3'
miRNA:   3'- -GGUUGUCgAACCGUUaCC-GCG---GGAAC- -5'
26553 5' -53.5 NC_005357.1 + 27586 0.72 0.345132
Target:  5'- aCCGGCAGCaggcGGCGccagAUGGCguggucgucGCCCUUGa -3'
miRNA:   3'- -GGUUGUCGaa--CCGU----UACCG---------CGGGAAC- -5'
26553 5' -53.5 NC_005357.1 + 15435 0.73 0.31989
Target:  5'- aCC-ACAGCUUGuuGAUGuucuugacGCGCCCUUGg -3'
miRNA:   3'- -GGuUGUCGAACcgUUAC--------CGCGGGAAC- -5'
26553 5' -53.5 NC_005357.1 + 18369 0.74 0.280951
Target:  5'- gCCGGCGGCgaggUUGGCcuugccGAUGGCGCCggUGg -3'
miRNA:   3'- -GGUUGUCG----AACCG------UUACCGCGGgaAC- -5'
26553 5' -53.5 NC_005357.1 + 37471 0.75 0.232888
Target:  5'- aCCAGCAGCgcgauacgcGGCugcaucGUGGCGCCCg-- -3'
miRNA:   3'- -GGUUGUCGaa-------CCGu-----UACCGCGGGaac -5'
26553 5' -53.5 NC_005357.1 + 10438 1.11 0.000664
Target:  5'- uCCAACAGCUUGGCAAUGGCGCCCUUGg -3'
miRNA:   3'- -GGUUGUCGAACCGUUACCGCGGGAAC- -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.