miRNA display CGI


Results 1 - 20 of 46 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
19241 3' -56.6 NC_004684.1 + 540 0.67 0.596802
Target:  5'- -cCCggCgAAAGGCCUGGAggGCACcGGGUu -3'
miRNA:   3'- uaGGa-G-UUUCCGGACCU--CGUGcUCCG- -5'
19241 3' -56.6 NC_004684.1 + 7208 0.68 0.521912
Target:  5'- cAUCCUgccAGGCCgcgucugGGAGCGCgugGAGGUg -3'
miRNA:   3'- -UAGGAguuUCCGGa------CCUCGUG---CUCCG- -5'
19241 3' -56.6 NC_004684.1 + 8472 0.66 0.683902
Target:  5'- uGUCCcCGGAGGCggggUGGGGCGgGGacGGCg -3'
miRNA:   3'- -UAGGaGUUUCCGg---ACCUCGUgCU--CCG- -5'
19241 3' -56.6 NC_004684.1 + 8941 0.7 0.43164
Target:  5'- -gCCUCAGcGGGCagucgGGuccGGCACGGGGCc -3'
miRNA:   3'- uaGGAGUU-UCCGga---CC---UCGUGCUCCG- -5'
19241 3' -56.6 NC_004684.1 + 9462 0.69 0.490897
Target:  5'- uUCC----GGGCgCUGGAGCugGcGGGCa -3'
miRNA:   3'- uAGGaguuUCCG-GACCUCGugC-UCCG- -5'
19241 3' -56.6 NC_004684.1 + 11642 0.68 0.511484
Target:  5'- cGUCCUCugcGGGCC-GGuGCaACGGGGa -3'
miRNA:   3'- -UAGGAGuu-UCCGGaCCuCG-UGCUCCg -5'
19241 3' -56.6 NC_004684.1 + 13756 0.68 0.543004
Target:  5'- gGUgCUCAAcGGCCUGGcGCuCcAGGCg -3'
miRNA:   3'- -UAgGAGUUuCCGGACCuCGuGcUCCG- -5'
19241 3' -56.6 NC_004684.1 + 14570 0.66 0.651322
Target:  5'- -aCCUgGugcgccGGGGCCaccgaggaGGAGCGCGAGGa -3'
miRNA:   3'- uaGGAgU------UUCCGGa-------CCUCGUGCUCCg -5'
19241 3' -56.6 NC_004684.1 + 15503 0.72 0.326813
Target:  5'- uUCCUgGAcaaggccgcccgGGGCCgGGcGCugGAGGCg -3'
miRNA:   3'- uAGGAgUU------------UCCGGaCCuCGugCUCCG- -5'
19241 3' -56.6 NC_004684.1 + 15516 0.67 0.575137
Target:  5'- -aCCgaggCcGAGGCCuUGGAgguGCugGAGGUg -3'
miRNA:   3'- uaGGa---GuUUCCGG-ACCU---CGugCUCCG- -5'
19241 3' -56.6 NC_004684.1 + 15640 0.68 0.543004
Target:  5'- -aCgaCAAGcGCCUGGAGCACGccGCa -3'
miRNA:   3'- uaGgaGUUUcCGGACCUCGUGCucCG- -5'
19241 3' -56.6 NC_004684.1 + 15910 0.76 0.171768
Target:  5'- cGUCCcggCAGAGGCCUacccggcaccGGAGCcugGCGGGGCc -3'
miRNA:   3'- -UAGGa--GUUUCCGGA----------CCUCG---UGCUCCG- -5'
19241 3' -56.6 NC_004684.1 + 17348 0.68 0.543004
Target:  5'- uUCCU----GGCCUGGAGC-C-AGGCa -3'
miRNA:   3'- uAGGAguuuCCGGACCUCGuGcUCCG- -5'
19241 3' -56.6 NC_004684.1 + 18090 0.76 0.186173
Target:  5'- gAUCCUgGAcggcaAGGCCaccGAGCGCGAGGCc -3'
miRNA:   3'- -UAGGAgUU-----UCCGGac-CUCGUGCUCCG- -5'
19241 3' -56.6 NC_004684.1 + 19458 0.68 0.543004
Target:  5'- -gCCaCcAAGGCCUGGAaGCAgaagguggcCGAGGCc -3'
miRNA:   3'- uaGGaGuUUCCGGACCU-CGU---------GCUCCG- -5'
19241 3' -56.6 NC_004684.1 + 22254 0.76 0.186173
Target:  5'- -aCUUCGccGAGGCCUGGGuGUACGAGaGCg -3'
miRNA:   3'- uaGGAGU--UUCCGGACCU-CGUGCUC-CG- -5'
19241 3' -56.6 NC_004684.1 + 22597 0.67 0.575137
Target:  5'- -gCUUCAAAGGCCUcGGugaggccguuacGGCGCuguggGAGGCc -3'
miRNA:   3'- uaGGAGUUUCCGGA-CC------------UCGUG-----CUCCG- -5'
19241 3' -56.6 NC_004684.1 + 23264 0.71 0.368101
Target:  5'- gGUgCUCAAcgacgcGGGCgaGGAGCGCGuGGUc -3'
miRNA:   3'- -UAgGAGUU------UCCGgaCCUCGUGCuCCG- -5'
19241 3' -56.6 NC_004684.1 + 23750 0.68 0.53242
Target:  5'- cUgCUCGGugcgcaguucGGGCCgUGGGGCGCGgcguuGGGCg -3'
miRNA:   3'- uAgGAGUU----------UCCGG-ACCUCGUGC-----UCCG- -5'
19241 3' -56.6 NC_004684.1 + 27711 0.76 0.176455
Target:  5'- -aUCUCGgcGGCCgagcGcGAGCACGAGGCa -3'
miRNA:   3'- uaGGAGUuuCCGGa---C-CUCGUGCUCCG- -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.