miRNA display CGI


Results 1 - 20 of 50 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
23149 3' -60.5 NC_005178.1 + 36068 0.67 0.272708
Target:  5'- cCCGCUgguGGGCAACggGUgCGaCCAcGGCu -3'
miRNA:   3'- uGGCGG---CCCGUUGa-CAgGC-GGUaCCG- -5'
23149 3' -60.5 NC_005178.1 + 35156 0.66 0.324453
Target:  5'- cGCCaGCCGGcuggaggacGUcACUGUCgGCCA-GGCc -3'
miRNA:   3'- -UGG-CGGCC---------CGuUGACAGgCGGUaCCG- -5'
23149 3' -60.5 NC_005178.1 + 33008 0.67 0.308957
Target:  5'- aACCaCUGGGCGGC-GUCCGgCucgaugGGCa -3'
miRNA:   3'- -UGGcGGCCCGUUGaCAGGCgGua----CCG- -5'
23149 3' -60.5 NC_005178.1 + 32873 0.67 0.308957
Target:  5'- uAUCGCaaaGGGCGAUguuggcgaUGUCgGCCAugccauUGGCc -3'
miRNA:   3'- -UGGCGg--CCCGUUG--------ACAGgCGGU------ACCG- -5'
23149 3' -60.5 NC_005178.1 + 32684 0.66 0.348767
Target:  5'- -aCGCCGaGGCAGCgGUUUcuuggguagGCCAgauUGGCg -3'
miRNA:   3'- ugGCGGC-CCGUUGaCAGG---------CGGU---ACCG- -5'
23149 3' -60.5 NC_005178.1 + 32420 0.75 0.084684
Target:  5'- gGCaGCCGGuGCGGCUGUaucaguucaGCCGUGGCg -3'
miRNA:   3'- -UGgCGGCC-CGUUGACAgg-------CGGUACCG- -5'
23149 3' -60.5 NC_005178.1 + 31587 0.67 0.279675
Target:  5'- gACCGCCGccGGCcugGACcugGUCCGCCccguccaGGCc -3'
miRNA:   3'- -UGGCGGC--CCG---UUGa--CAGGCGGua-----CCG- -5'
23149 3' -60.5 NC_005178.1 + 30046 0.66 0.352106
Target:  5'- -gCGCCGGGCcAuucacgcgcuaucacCUGUUCGCCAccGCu -3'
miRNA:   3'- ugGCGGCCCGuU---------------GACAGGCGGUacCG- -5'
23149 3' -60.5 NC_005178.1 + 28734 0.73 0.112353
Target:  5'- cACgCGCCGGGCGACUuUCuUGCCGaccUGGUg -3'
miRNA:   3'- -UG-GCGGCCCGUUGAcAG-GCGGU---ACCG- -5'
23149 3' -60.5 NC_005178.1 + 28307 0.67 0.301423
Target:  5'- aGCUGCCgGGGCcGCUGgagUgGCUgGUGGCg -3'
miRNA:   3'- -UGGCGG-CCCGuUGACa--GgCGG-UACCG- -5'
23149 3' -60.5 NC_005178.1 + 28232 0.73 0.11849
Target:  5'- cGCCGCCGcuauccaGGCcGCUG-CCGCCucgcUGGCc -3'
miRNA:   3'- -UGGCGGC-------CCGuUGACaGGCGGu---ACCG- -5'
23149 3' -60.5 NC_005178.1 + 27879 0.7 0.169974
Target:  5'- gGCCGCCcaGGGCAACUGg--GUCAacggGGCg -3'
miRNA:   3'- -UGGCGG--CCCGUUGACaggCGGUa---CCG- -5'
23149 3' -60.5 NC_005178.1 + 26294 1.11 0.000126
Target:  5'- cACCGCCGGGCAACUGUCCGCCAUGGCg -3'
miRNA:   3'- -UGGCGGCCCGUUGACAGGCGGUACCG- -5'
23149 3' -60.5 NC_005178.1 + 25819 0.69 0.199682
Target:  5'- gACCGCCugcucGGCAcguCUGa-CGCCAUGGCc -3'
miRNA:   3'- -UGGCGGc----CCGUu--GACagGCGGUACCG- -5'
23149 3' -60.5 NC_005178.1 + 25365 0.67 0.301423
Target:  5'- gGCUgGCCGGG-AGCUGUCCGgUuUGGg -3'
miRNA:   3'- -UGG-CGGCCCgUUGACAGGCgGuACCg -5'
23149 3' -60.5 NC_005178.1 + 24961 0.66 0.346278
Target:  5'- uCUGgUGGGCAGCcaaccaggguuuuuUcGUCCGCCgccuGUGGCg -3'
miRNA:   3'- uGGCgGCCCGUUG--------------A-CAGGCGG----UACCG- -5'
23149 3' -60.5 NC_005178.1 + 24163 0.66 0.357156
Target:  5'- cCCGCCGaccuGGUGGCUGgcgaugugaUCCGCU-UGGCc -3'
miRNA:   3'- uGGCGGC----CCGUUGAC---------AGGCGGuACCG- -5'
23149 3' -60.5 NC_005178.1 + 23756 0.66 0.34052
Target:  5'- --aGCUGGGCAAUa-UCCGCCAggaagucucUGGUg -3'
miRNA:   3'- uggCGGCCCGUUGacAGGCGGU---------ACCG- -5'
23149 3' -60.5 NC_005178.1 + 23547 0.66 0.324453
Target:  5'- gGCCGuCCGGGUg---GUCCaccaGCUcgGGCa -3'
miRNA:   3'- -UGGC-GGCCCGuugaCAGG----CGGuaCCG- -5'
23149 3' -60.5 NC_005178.1 + 22705 0.69 0.210547
Target:  5'- gAUCGCCGGGUcGCUG-CCgaguGCCAUaGCg -3'
miRNA:   3'- -UGGCGGCCCGuUGACaGG----CGGUAcCG- -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.