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
24412 5' -57.5 NC_005264.1 + 113902 0.66 0.889422
Target:  5'- gCGGCCCGCacaagugcccaUCGGGcGAGACUCUggCCUu -3'
miRNA:   3'- -GCUGGGCGc----------AGUCCaUUCUGAGG--GGA- -5'
24412 5' -57.5 NC_005264.1 + 149688 0.66 0.882682
Target:  5'- aGACauagCgGCGUCGGGaaGAGACcguaUCCCCUa -3'
miRNA:   3'- gCUG----GgCGCAGUCCa-UUCUG----AGGGGA- -5'
24412 5' -57.5 NC_005264.1 + 133547 0.66 0.875729
Target:  5'- aCGGgCgGCGUgAGGUAccGGCUCCCg- -3'
miRNA:   3'- -GCUgGgCGCAgUCCAUu-CUGAGGGga -5'
24412 5' -57.5 NC_005264.1 + 35505 0.66 0.861202
Target:  5'- gCGACgCCGCGgcgCAGGU---GC-CCCCg -3'
miRNA:   3'- -GCUG-GGCGCa--GUCCAuucUGaGGGGa -5'
24412 5' -57.5 NC_005264.1 + 154532 0.66 0.861202
Target:  5'- gCGACgCCGCGgcgCAGGU---GC-CCCCg -3'
miRNA:   3'- -GCUG-GGCGCa--GUCCAuucUGaGGGGa -5'
24412 5' -57.5 NC_005264.1 + 56684 0.67 0.845883
Target:  5'- gGGCCacagGUGUUcGGUAAGGCUCgCCg -3'
miRNA:   3'- gCUGGg---CGCAGuCCAUUCUGAGgGGa -5'
24412 5' -57.5 NC_005264.1 + 31865 0.67 0.837941
Target:  5'- gCGACCU-CGUCAGGcaaguGGACUuucaCCCCa -3'
miRNA:   3'- -GCUGGGcGCAGUCCau---UCUGA----GGGGa -5'
24412 5' -57.5 NC_005264.1 + 150891 0.67 0.837941
Target:  5'- gCGACCU-CGUCAGGcaaguGGACUuucaCCCCa -3'
miRNA:   3'- -GCUGGGcGCAGUCCau---UCUGA----GGGGa -5'
24412 5' -57.5 NC_005264.1 + 40506 0.67 0.821526
Target:  5'- uCGGCCCGcCGUUcGG-AAGccccucACUCCCCg -3'
miRNA:   3'- -GCUGGGC-GCAGuCCaUUC------UGAGGGGa -5'
24412 5' -57.5 NC_005264.1 + 3855 0.67 0.821526
Target:  5'- gGuCCUGCGcCGGGgauuGGGCUgCCCCa -3'
miRNA:   3'- gCuGGGCGCaGUCCau--UCUGA-GGGGa -5'
24412 5' -57.5 NC_005264.1 + 159533 0.67 0.821526
Target:  5'- uCGGCCCGcCGUUcGG-AAGccccucACUCCCCg -3'
miRNA:   3'- -GCUGGGC-GCAGuCCaUUC------UGAGGGGa -5'
24412 5' -57.5 NC_005264.1 + 79486 0.67 0.821526
Target:  5'- gGuuCUGCGUCGGGgGAGGC-CCCUg -3'
miRNA:   3'- gCugGGCGCAGUCCaUUCUGaGGGGa -5'
24412 5' -57.5 NC_005264.1 + 59024 0.67 0.813068
Target:  5'- aGGCaggCGCGUCAGGUcGGuCUCCgCg -3'
miRNA:   3'- gCUGg--GCGCAGUCCAuUCuGAGGgGa -5'
24412 5' -57.5 NC_005264.1 + 42466 0.68 0.804452
Target:  5'- aGACaCCGgGcUCAGGUcugcGugUCCCCg -3'
miRNA:   3'- gCUG-GGCgC-AGUCCAuu--CugAGGGGa -5'
24412 5' -57.5 NC_005264.1 + 19437 0.68 0.804452
Target:  5'- uGGCCgCGgGgcgCGGGUGGGuuucuCUCCCCc -3'
miRNA:   3'- gCUGG-GCgCa--GUCCAUUCu----GAGGGGa -5'
24412 5' -57.5 NC_005264.1 + 161493 0.68 0.804452
Target:  5'- aGACaCCGgGcUCAGGUcugcGugUCCCCg -3'
miRNA:   3'- gCUG-GGCgC-AGUCCAuu--CugAGGGGa -5'
24412 5' -57.5 NC_005264.1 + 63294 0.68 0.795686
Target:  5'- cCGGCCC-CaGUCGGGggaugcGGACUCCCg- -3'
miRNA:   3'- -GCUGGGcG-CAGUCCau----UCUGAGGGga -5'
24412 5' -57.5 NC_005264.1 + 119653 0.68 0.777739
Target:  5'- cCGGCCCGCGUCgcAGGcagcgcgauaGAGGCUcacgcgccccCCCCUc -3'
miRNA:   3'- -GCUGGGCGCAG--UCCa---------UUCUGA----------GGGGA- -5'
24412 5' -57.5 NC_005264.1 + 626 0.68 0.777739
Target:  5'- cCGGCCCGCGUCgcAGGcagcgcgauaGAGGCUcacgcgccccCCCCUc -3'
miRNA:   3'- -GCUGGGCGCAG--UCCa---------UUCUGA----------GGGGA- -5'
24412 5' -57.5 NC_005264.1 + 120000 0.68 0.759292
Target:  5'- -aGCCCcugggGCGgCAGGUGGGcCUCCCCc -3'
miRNA:   3'- gcUGGG-----CGCaGUCCAUUCuGAGGGGa -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.