miRNA display CGI


Results 1 - 20 of 27 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
23696 3' -54.2 NC_005261.1 + 10816 1.1 0.004733
Target:  5'- uCCUCGUCGUCCUCGUCGUCGGAGUUGu -3'
miRNA:   3'- -GGAGCAGCAGGAGCAGCAGCCUCAAC- -5'
23696 3' -54.2 NC_005261.1 + 10771 0.84 0.203587
Target:  5'- uCCUCGUCGUCCUCGUCGUCa------ -3'
miRNA:   3'- -GGAGCAGCAGGAGCAGCAGccucaac -5'
23696 3' -54.2 NC_005261.1 + 32605 0.77 0.487868
Target:  5'- uCCUCGUCGUCCgCGUCcUCGGAc--- -3'
miRNA:   3'- -GGAGCAGCAGGaGCAGcAGCCUcaac -5'
23696 3' -54.2 NC_005261.1 + 12787 0.73 0.687543
Target:  5'- gCUCGUCGgcgagCUCGUCGUCGGcGUc- -3'
miRNA:   3'- gGAGCAGCag---GAGCAGCAGCCuCAac -5'
23696 3' -54.2 NC_005261.1 + 22860 0.72 0.717448
Target:  5'- --aCGUCGUCCUCGcCGUCcGAGaUGg -3'
miRNA:   3'- ggaGCAGCAGGAGCaGCAGcCUCaAC- -5'
23696 3' -54.2 NC_005261.1 + 16390 0.72 0.746704
Target:  5'- gCCUCGcCGUCgUCGUCGcCGGgcGGUg- -3'
miRNA:   3'- -GGAGCaGCAGgAGCAGCaGCC--UCAac -5'
23696 3' -54.2 NC_005261.1 + 108670 0.71 0.79336
Target:  5'- gCgUCG-CGUCCUCGUCGuccggcUCGGGGa-- -3'
miRNA:   3'- -GgAGCaGCAGGAGCAGC------AGCCUCaac -5'
23696 3' -54.2 NC_005261.1 + 23090 0.71 0.811079
Target:  5'- uCCUCGuagUCGUCCUCGuagUCGUCcucgcugcuGGAGUc- -3'
miRNA:   3'- -GGAGC---AGCAGGAGC---AGCAG---------CCUCAac -5'
23696 3' -54.2 NC_005261.1 + 112728 0.71 0.811079
Target:  5'- uCCUCGUCGUCCgcagcaUCGUCaugaCGGGGa-- -3'
miRNA:   3'- -GGAGCAGCAGG------AGCAGca--GCCUCaac -5'
23696 3' -54.2 NC_005261.1 + 86099 0.7 0.819702
Target:  5'- uUCUCGUCGgcgCC-CGggCGUCGGAGc-- -3'
miRNA:   3'- -GGAGCAGCa--GGaGCa-GCAGCCUCaac -5'
23696 3' -54.2 NC_005261.1 + 53154 0.69 0.867645
Target:  5'- --cCGUCGcgCCgcCGUCGUCGGGGUc- -3'
miRNA:   3'- ggaGCAGCa-GGa-GCAGCAGCCUCAac -5'
23696 3' -54.2 NC_005261.1 + 23069 0.69 0.867645
Target:  5'- uCUUCGUCGUCCUCGUaGUCGn----- -3'
miRNA:   3'- -GGAGCAGCAGGAGCAgCAGCcucaac -5'
23696 3' -54.2 NC_005261.1 + 128025 0.69 0.888881
Target:  5'- aCUCGUagucaUCCUCGUCGUCcGAGg-- -3'
miRNA:   3'- gGAGCAgc---AGGAGCAGCAGcCUCaac -5'
23696 3' -54.2 NC_005261.1 + 11013 0.68 0.90193
Target:  5'- uCCUCGaCGgCCUCGUCGcCGGGc--- -3'
miRNA:   3'- -GGAGCaGCaGGAGCAGCaGCCUcaac -5'
23696 3' -54.2 NC_005261.1 + 120991 0.68 0.90193
Target:  5'- gCCcCGUaGUCUucguaaUCGUCGUCGGAGg-- -3'
miRNA:   3'- -GGaGCAgCAGG------AGCAGCAGCCUCaac -5'
23696 3' -54.2 NC_005261.1 + 12840 0.67 0.930493
Target:  5'- uCCUCGUCGgggaagaaCUCGUCGUCGc----- -3'
miRNA:   3'- -GGAGCAGCag------GAGCAGCAGCcucaac -5'
23696 3' -54.2 NC_005261.1 + 93708 0.67 0.935499
Target:  5'- gCCUCuUCcUCCUCGUCGUCGucGgcGg -3'
miRNA:   3'- -GGAGcAGcAGGAGCAGCAGCcuCaaC- -5'
23696 3' -54.2 NC_005261.1 + 13853 0.67 0.935499
Target:  5'- uCCUCGUCG-CCggCGUCGcCGGcGg-- -3'
miRNA:   3'- -GGAGCAGCaGGa-GCAGCaGCCuCaac -5'
23696 3' -54.2 NC_005261.1 + 86995 0.67 0.94027
Target:  5'- cCCUCGUgGcCCUCGUCGaaGGccaAGUg- -3'
miRNA:   3'- -GGAGCAgCaGGAGCAGCagCC---UCAac -5'
23696 3' -54.2 NC_005261.1 + 98988 0.67 0.94027
Target:  5'- --aCGUCGUCCUCGgcaaucuucagCGUCGcGAGc-- -3'
miRNA:   3'- ggaGCAGCAGGAGCa----------GCAGC-CUCaac -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.