miRNA display CGI


Results 1 - 20 of 22 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
9587 3' -52.1 NC_002577.1 + 121790 0.66 0.990631
Target:  5'- aCGAggcgCaCGcGCGCCUGCUC-CGGCg -3'
miRNA:   3'- -GCUaaaaGaGC-UGCGGAUGGGaGCCG- -5'
9587 3' -52.1 NC_002577.1 + 11908 0.66 0.990631
Target:  5'- aCGAggcgCaCGcGCGCCUGCUC-CGGCg -3'
miRNA:   3'- -GCUaaaaGaGC-UGCGGAUGGGaGCCG- -5'
9587 3' -52.1 NC_002577.1 + 109933 0.66 0.986335
Target:  5'- gCGAUgggUCUCGACGaCCgcgucgaGCCCagGGg -3'
miRNA:   3'- -GCUAaa-AGAGCUGC-GGa------UGGGagCCg -5'
9587 3' -52.1 NC_002577.1 + 122886 0.67 0.978437
Target:  5'- cCGAg---CUCGGCcaGUUcgaUGCCCUCGGUa -3'
miRNA:   3'- -GCUaaaaGAGCUG--CGG---AUGGGAGCCG- -5'
9587 3' -52.1 NC_002577.1 + 10728 0.67 0.978437
Target:  5'- cCGAg---CUCGGCcaGUUcgaUGCCCUCGGUa -3'
miRNA:   3'- -GCUaaaaGAGCUG--CGG---AUGGGAGCCG- -5'
9587 3' -52.1 NC_002577.1 + 139729 0.68 0.973409
Target:  5'- -cAUUUUgUCGGCGCUccuucgcuUCCUCGGCc -3'
miRNA:   3'- gcUAAAAgAGCUGCGGau------GGGAGCCG- -5'
9587 3' -52.1 NC_002577.1 + 128563 0.68 0.973409
Target:  5'- cCGAgcaUCggcgCGcGCGCCgugucccCCCUCGGCg -3'
miRNA:   3'- -GCUaaaAGa---GC-UGCGGau-----GGGAGCCG- -5'
9587 3' -52.1 NC_002577.1 + 5051 0.68 0.973409
Target:  5'- cCGAgcaUCggcgCGcGCGCCgugucccCCCUCGGCg -3'
miRNA:   3'- -GCUaaaAGa---GC-UGCGGau-----GGGAGCCG- -5'
9587 3' -52.1 NC_002577.1 + 157609 0.68 0.973409
Target:  5'- -cAUUUUgUCGGCGCUccuucgcuUCCUCGGCc -3'
miRNA:   3'- gcUAAAAgAGCUGCGGau------GGGAGCCG- -5'
9587 3' -52.1 NC_002577.1 + 136723 0.68 0.967583
Target:  5'- ------cCUCGACGCCUAUUgUCcaGGCg -3'
miRNA:   3'- gcuaaaaGAGCUGCGGAUGGgAG--CCG- -5'
9587 3' -52.1 NC_002577.1 + 129179 0.68 0.967583
Target:  5'- ------aCUCGGCGCgCgUACCCgCGGCc -3'
miRNA:   3'- gcuaaaaGAGCUGCG-G-AUGGGaGCCG- -5'
9587 3' -52.1 NC_002577.1 + 160615 0.68 0.967583
Target:  5'- ------cCUCGACGCCUAUUgUCcaGGCg -3'
miRNA:   3'- gcuaaaaGAGCUGCGGAUGGgAG--CCG- -5'
9587 3' -52.1 NC_002577.1 + 4435 0.68 0.967583
Target:  5'- ------aCUCGGCGCgCgUACCCgCGGCc -3'
miRNA:   3'- gcuaaaaGAGCUGCG-G-AUGGGaGCCG- -5'
9587 3' -52.1 NC_002577.1 + 99973 0.68 0.964019
Target:  5'- aGGUUcUCUCGAacuuCGUUUGgaccggaauuauuCCCUCGGCa -3'
miRNA:   3'- gCUAAaAGAGCU----GCGGAU-------------GGGAGCCG- -5'
9587 3' -52.1 NC_002577.1 + 146605 0.68 0.964019
Target:  5'- --cUUUUCUCGgcgguuuggcaaaACGCC--CCCUUGGCa -3'
miRNA:   3'- gcuAAAAGAGC-------------UGCGGauGGGAGCCG- -5'
9587 3' -52.1 NC_002577.1 + 10584 0.69 0.938788
Target:  5'- gGAUgaUCUCgGACGCgcgucgguccguuuCUGCCCUugCGGCg -3'
miRNA:   3'- gCUAaaAGAG-CUGCG--------------GAUGGGA--GCCG- -5'
9587 3' -52.1 NC_002577.1 + 123029 0.7 0.917634
Target:  5'- gGAUgagUCUCgGACGCgcgucgguccguuuCUGCCCUugCGGCg -3'
miRNA:   3'- gCUAaa-AGAG-CUGCG--------------GAUGGGA--GCCG- -5'
9587 3' -52.1 NC_002577.1 + 95744 0.71 0.89462
Target:  5'- cCGGUUcuggggUCUCGAUGCCgugaACUCaagUCGGCg -3'
miRNA:   3'- -GCUAAa-----AGAGCUGCGGa---UGGG---AGCCG- -5'
9587 3' -52.1 NC_002577.1 + 2862 0.92 0.092312
Target:  5'- gCGAUUUcCUCuGCGCCUACCCUCGGCc -3'
miRNA:   3'- -GCUAAAaGAGcUGCGGAUGGGAGCCG- -5'
9587 3' -52.1 NC_002577.1 + 130752 0.92 0.092312
Target:  5'- gCGAUUUcCUCuGCGCCUACCCUCGGCc -3'
miRNA:   3'- -GCUAAAaGAGcUGCGGAUGGGAGCCG- -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.