miRNA display CGI


Results 1 - 20 of 35 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
23253 3' -58.7 NC_005259.1 + 934 0.66 0.625
Target:  5'- gCUGcgCgacaGCGGaaaaGuCGGGCAGCUCg -3'
miRNA:   3'- -GGCuaGag--CGCCag--CuGCCCGUCGAG- -5'
23253 3' -58.7 NC_005259.1 + 3298 0.7 0.40792
Target:  5'- gCCGGUCccucggcgagCGCuGcGUCGAcgugagcgcCGGGCAGCUCu -3'
miRNA:   3'- -GGCUAGa---------GCG-C-CAGCU---------GCCCGUCGAG- -5'
23253 3' -58.7 NC_005259.1 + 5059 0.66 0.59363
Target:  5'- aCGGUCgagaUCGUgggccgGGUCGACGGGcCGGUg- -3'
miRNA:   3'- gGCUAG----AGCG------CCAGCUGCCC-GUCGag -5'
23253 3' -58.7 NC_005259.1 + 7038 0.67 0.582183
Target:  5'- cCCGGcgggguuuuUCguugCGCGagauccuGUCGACGGGCGGgCUUg -3'
miRNA:   3'- -GGCU---------AGa---GCGC-------CAGCUGCCCGUC-GAG- -5'
23253 3' -58.7 NC_005259.1 + 9556 0.66 0.614527
Target:  5'- cCCGGcCUCGacCGcGUCGGCGaGguGCUCg -3'
miRNA:   3'- -GGCUaGAGC--GC-CAGCUGCcCguCGAG- -5'
23253 3' -58.7 NC_005259.1 + 10482 0.69 0.429475
Target:  5'- aCGAUCuuggggUCGUGGUUGuugggguuguccggcACGGGCcAGCUCc -3'
miRNA:   3'- gGCUAG------AGCGCCAGC---------------UGCCCG-UCGAG- -5'
23253 3' -58.7 NC_005259.1 + 11286 0.66 0.59363
Target:  5'- aUGGUCUgagGaCGGUCGACGGGCgugaGGC-Cg -3'
miRNA:   3'- gGCUAGAg--C-GCCAGCUGCCCG----UCGaG- -5'
23253 3' -58.7 NC_005259.1 + 12359 0.67 0.562524
Target:  5'- aCCGGcCUCGCGaccgagguaGUCGGCGaGaGCGGCaUCg -3'
miRNA:   3'- -GGCUaGAGCGC---------CAGCUGC-C-CGUCG-AG- -5'
23253 3' -58.7 NC_005259.1 + 16781 0.66 0.645956
Target:  5'- aCGA-CUCGUgGGUCGACGcGGUcGCg- -3'
miRNA:   3'- gGCUaGAGCG-CCAGCUGC-CCGuCGag -5'
23253 3' -58.7 NC_005259.1 + 17339 0.72 0.289556
Target:  5'- gCCGGUCaacgUCGCcGUCGAgGucGGCGGCUCg -3'
miRNA:   3'- -GGCUAG----AGCGcCAGCUgC--CCGUCGAG- -5'
23253 3' -58.7 NC_005259.1 + 17519 0.68 0.511777
Target:  5'- uCCGAgCUCGUGGgcacacagcgaCGGCGGGCAuuUCu -3'
miRNA:   3'- -GGCUaGAGCGCCa----------GCUGCCCGUcgAG- -5'
23253 3' -58.7 NC_005259.1 + 19202 0.72 0.310897
Target:  5'- gCGAgCUCGUGGU--GCGGGCGGCg- -3'
miRNA:   3'- gGCUaGAGCGCCAgcUGCCCGUCGag -5'
23253 3' -58.7 NC_005259.1 + 29883 0.7 0.39914
Target:  5'- cCCGAUgUCGaGGUCGGCaagcacaagGGGUGGCUg -3'
miRNA:   3'- -GGCUAgAGCgCCAGCUG---------CCCGUCGAg -5'
23253 3' -58.7 NC_005259.1 + 32562 0.66 0.635479
Target:  5'- cCCGG-CgagCGCGGggauagCGuuGGGCAGCg- -3'
miRNA:   3'- -GGCUaGa--GCGCCa-----GCugCCCGUCGag -5'
23253 3' -58.7 NC_005259.1 + 36484 1.11 0.000563
Target:  5'- cCCGAUCUCGCGGUCGACGGGCAGCUCu -3'
miRNA:   3'- -GGCUAGAGCGCCAGCUGCCCGUCGAG- -5'
23253 3' -58.7 NC_005259.1 + 40119 0.75 0.185129
Target:  5'- aUGcgCUCGUGGaaUUGGCGGGCgAGCUCg -3'
miRNA:   3'- gGCuaGAGCGCC--AGCUGCCCG-UCGAG- -5'
23253 3' -58.7 NC_005259.1 + 41090 0.67 0.561494
Target:  5'- gCCGGUCguagUCgGCGGUCGGCGGuaugacgaugucgGCGGUg- -3'
miRNA:   3'- -GGCUAG----AG-CGCCAGCUGCC-------------CGUCGag -5'
23253 3' -58.7 NC_005259.1 + 41493 0.68 0.511777
Target:  5'- aCGAcCUCgGCGGU-GGCGGGCAGa-- -3'
miRNA:   3'- gGCUaGAG-CGCCAgCUGCCCGUCgag -5'
23253 3' -58.7 NC_005259.1 + 41846 0.75 0.205016
Target:  5'- cUCGAcCUCGaCGGugucccacUCGACGGGCAGCa- -3'
miRNA:   3'- -GGCUaGAGC-GCC--------AGCUGCCCGUCGag -5'
23253 3' -58.7 NC_005259.1 + 42535 0.7 0.39914
Target:  5'- cCCGAUgggcacCGaGGU-GGCGGGCAGCUCg -3'
miRNA:   3'- -GGCUAga----GCgCCAgCUGCCCGUCGAG- -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.