miRNA display CGI


Results 1 - 20 of 25 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
19781 5' -59.2 NC_004687.1 + 42562 0.66 0.806992
Target:  5'- gCCaCGGGagccCGGAGCCUucCGGCuGUCGAa -3'
miRNA:   3'- aGGaGCCCa---GCCUCGGA--GCUG-CAGUU- -5'
19781 5' -59.2 NC_004687.1 + 96990 0.66 0.806128
Target:  5'- gUCCUCGGGcgcgucgUCGcGcGCCUCGAUGa--- -3'
miRNA:   3'- -AGGAGCCC-------AGC-CuCGGAGCUGCaguu -5'
19781 5' -59.2 NC_004687.1 + 37419 0.66 0.798293
Target:  5'- gCCggUGGGUCcGGGCCUUGACGa--- -3'
miRNA:   3'- aGGa-GCCCAGcCUCGGAGCUGCaguu -5'
19781 5' -59.2 NC_004687.1 + 77727 0.66 0.798293
Target:  5'- gCCUgGGGUCGcuGCUgCGGCGUCu- -3'
miRNA:   3'- aGGAgCCCAGCcuCGGaGCUGCAGuu -5'
19781 5' -59.2 NC_004687.1 + 91483 0.66 0.797415
Target:  5'- -aCUCGGGUUGGuccagucAGCgaCGugGUCGu -3'
miRNA:   3'- agGAGCCCAGCC-------UCGgaGCugCAGUu -5'
19781 5' -59.2 NC_004687.1 + 145097 0.66 0.789451
Target:  5'- -aCUCGGGcCGGAuucGuCCUCaACGUCGAc -3'
miRNA:   3'- agGAGCCCaGCCU---C-GGAGcUGCAGUU- -5'
19781 5' -59.2 NC_004687.1 + 27499 0.66 0.789451
Target:  5'- -gUUCGGGcCGGAaggGCCUUGGCGgCAGg -3'
miRNA:   3'- agGAGCCCaGCCU---CGGAGCUGCaGUU- -5'
19781 5' -59.2 NC_004687.1 + 134908 0.66 0.771371
Target:  5'- aCCUCuGGUgGGcccuggccauuGGCCUCGACGcCGu -3'
miRNA:   3'- aGGAGcCCAgCC-----------UCGGAGCUGCaGUu -5'
19781 5' -59.2 NC_004687.1 + 54051 0.66 0.771371
Target:  5'- aCCUC-GGUCGaGGGUCgguccggugaugUCGACGUCAc -3'
miRNA:   3'- aGGAGcCCAGC-CUCGG------------AGCUGCAGUu -5'
19781 5' -59.2 NC_004687.1 + 113849 0.66 0.762149
Target:  5'- cUCCgUCGGGUCcuGGCCggUGACGUCc- -3'
miRNA:   3'- -AGG-AGCCCAGccUCGGa-GCUGCAGuu -5'
19781 5' -59.2 NC_004687.1 + 12980 0.66 0.762149
Target:  5'- gCCUgGuGGUCGGGuuGaCCUCGGgGUCAGc -3'
miRNA:   3'- aGGAgC-CCAGCCU--C-GGAGCUgCAGUU- -5'
19781 5' -59.2 NC_004687.1 + 46371 0.67 0.756562
Target:  5'- aUCUcCGGGUCGGaAagcaucuuggcgacaGCCUCGGgGUCGGg -3'
miRNA:   3'- -AGGaGCCCAGCC-U---------------CGGAGCUgCAGUU- -5'
19781 5' -59.2 NC_004687.1 + 41531 0.67 0.752817
Target:  5'- cCCUUccaGUCGGGGuCCUCGGCGUgCAGg -3'
miRNA:   3'- aGGAGcc-CAGCCUC-GGAGCUGCA-GUU- -5'
19781 5' -59.2 NC_004687.1 + 9853 0.67 0.724247
Target:  5'- aUCCUCGaccuGGcgCGcGGUCUCGGCGUCGGg -3'
miRNA:   3'- -AGGAGC----CCa-GCcUCGGAGCUGCAGUU- -5'
19781 5' -59.2 NC_004687.1 + 22230 0.67 0.714561
Target:  5'- gCCa-GGGUugCGGcAGCCUCGGgGUCGAg -3'
miRNA:   3'- aGGagCCCA--GCC-UCGGAGCUgCAGUU- -5'
19781 5' -59.2 NC_004687.1 + 63221 0.68 0.675233
Target:  5'- cUCCUugCGGG-CGGAGCCggucagCGcgaccGCGUCGAg -3'
miRNA:   3'- -AGGA--GCCCaGCCUCGGa-----GC-----UGCAGUU- -5'
19781 5' -59.2 NC_004687.1 + 74388 0.69 0.585521
Target:  5'- -gCUCGGcGcCGGGGCCUgGGCGcUCAAc -3'
miRNA:   3'- agGAGCC-CaGCCUCGGAgCUGC-AGUU- -5'
19781 5' -59.2 NC_004687.1 + 106325 0.7 0.575623
Target:  5'- cUCCUCGGcGcCGGGGCC-CGAguucacCGUCGGg -3'
miRNA:   3'- -AGGAGCC-CaGCCUCGGaGCU------GCAGUU- -5'
19781 5' -59.2 NC_004687.1 + 37489 0.7 0.575623
Target:  5'- gUCCaUCGGGUgcCGGAuGCaCUCGcCGUCGAu -3'
miRNA:   3'- -AGG-AGCCCA--GCCU-CG-GAGCuGCAGUU- -5'
19781 5' -59.2 NC_004687.1 + 120623 0.7 0.575623
Target:  5'- cCCUCGGG-CGGGGU---GACGUCGAg -3'
miRNA:   3'- aGGAGCCCaGCCUCGgagCUGCAGUU- -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.