miRNA display CGI


Results 1 - 20 of 54 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
13959 3' -64.2 NC_003521.1 + 708 0.66 0.680116
Target:  5'- uGCCUCaCCGGCUGGcuuaccgccGGCUUGGc-CUCg -3'
miRNA:   3'- -CGGGG-GGCCGACC---------UCGGACCacGAGg -5'
13959 3' -64.2 NC_003521.1 + 6421 0.67 0.602198
Target:  5'- gGCCCCgCCaGGgguugcugcucuucCUGGGGCuuCUGGUGCuguUCCu -3'
miRNA:   3'- -CGGGG-GG-CC--------------GACCUCG--GACCACG---AGG- -5'
13959 3' -64.2 NC_003521.1 + 26029 0.69 0.503969
Target:  5'- aGCCCCUgGGCU---GCCUGGUGgUgCCc -3'
miRNA:   3'- -CGGGGGgCCGAccuCGGACCACgA-GG- -5'
13959 3' -64.2 NC_003521.1 + 27631 1.12 0.000544
Target:  5'- gGCCCCCCGGCUGGAGCCUGGUGCUCCa -3'
miRNA:   3'- -CGGGGGGCCGACCUCGGACCACGAGG- -5'
13959 3' -64.2 NC_003521.1 + 27760 0.67 0.579757
Target:  5'- cGCCCCCCGuggaguucuccgaccGCcacaugacggaccUGGccAGCCUGGcGCUCa -3'
miRNA:   3'- -CGGGGGGC---------------CG-------------ACC--UCGGACCaCGAGg -5'
13959 3' -64.2 NC_003521.1 + 28534 0.7 0.410919
Target:  5'- uGCCCaugCCGGCcuucgcccUGGccAGCCUGGUGgaCCc -3'
miRNA:   3'- -CGGGg--GGCCG--------ACC--UCGGACCACgaGG- -5'
13959 3' -64.2 NC_003521.1 + 34843 0.72 0.329294
Target:  5'- cGCCUgcagCCCGGCgucAGCCUGGUGCaCCc -3'
miRNA:   3'- -CGGG----GGGCCGaccUCGGACCACGaGG- -5'
13959 3' -64.2 NC_003521.1 + 40316 0.68 0.567673
Target:  5'- aGCCCCuuGGCc--AGCUcGGUGCgcgCCg -3'
miRNA:   3'- -CGGGGggCCGaccUCGGaCCACGa--GG- -5'
13959 3' -64.2 NC_003521.1 + 43050 0.66 0.661408
Target:  5'- aGCCgCCgGGCUGcacGGGCa-GGUGCUUg -3'
miRNA:   3'- -CGGgGGgCCGAC---CUCGgaCCACGAGg -5'
13959 3' -64.2 NC_003521.1 + 43863 0.69 0.504859
Target:  5'- cGCCCCggCCGGCUcccGGGCCgucgcccacgcuaccGGUGCUgCCg -3'
miRNA:   3'- -CGGGG--GGCCGAc--CUCGGa--------------CCACGA-GG- -5'
13959 3' -64.2 NC_003521.1 + 44030 0.7 0.443559
Target:  5'- cGCCCaccuaCCuGCUGGAGucCCUGGUGgacUUCCa -3'
miRNA:   3'- -CGGGg----GGcCGACCUC--GGACCAC---GAGG- -5'
13959 3' -64.2 NC_003521.1 + 49894 0.7 0.435261
Target:  5'- uGCCCCCC-GCUGGA-CCaGGaGCUCg -3'
miRNA:   3'- -CGGGGGGcCGACCUcGGaCCaCGAGg -5'
13959 3' -64.2 NC_003521.1 + 50572 0.74 0.238269
Target:  5'- uGCCuCCCUGGCUgaGGAGCgaGGUGCg-- -3'
miRNA:   3'- -CGG-GGGGCCGA--CCUCGgaCCACGagg -5'
13959 3' -64.2 NC_003521.1 + 56234 0.69 0.460416
Target:  5'- gGCCCCUgcacauCGGCguggUGGGGCUgcacacGGUGCUCa -3'
miRNA:   3'- -CGGGGG------GCCG----ACCUCGGa-----CCACGAGg -5'
13959 3' -64.2 NC_003521.1 + 70372 0.68 0.530942
Target:  5'- gGCCCUUCGGC-GGcacgccGGCCaGGUGC-CCu -3'
miRNA:   3'- -CGGGGGGCCGaCC------UCGGaCCACGaGG- -5'
13959 3' -64.2 NC_003521.1 + 75338 0.68 0.548294
Target:  5'- gGCCaCCauGGCgucGGAGgcggugggcaggaUCUGGUGCUCCu -3'
miRNA:   3'- -CGG-GGggCCGa--CCUC-------------GGACCACGAGG- -5'
13959 3' -64.2 NC_003521.1 + 79130 0.66 0.661408
Target:  5'- cGCCUggucaucgaCCGGC-GGAucaccaccuucGgCUGGUGCUCCg -3'
miRNA:   3'- -CGGGg--------GGCCGaCCU-----------CgGACCACGAGG- -5'
13959 3' -64.2 NC_003521.1 + 80415 0.66 0.667031
Target:  5'- gGCCCUCagCGGCUGGAcgcgcagcaccgGCCgcaaaaacacaagGGcGCUCCc -3'
miRNA:   3'- -CGGGGG--GCCGACCU------------CGGa------------CCaCGAGG- -5'
13959 3' -64.2 NC_003521.1 + 92664 0.66 0.670775
Target:  5'- uCCCCCCGGUcGaGcAGCCUcggcgaGGUGCcgggUCCc -3'
miRNA:   3'- cGGGGGGCCGaC-C-UCGGA------CCACG----AGG- -5'
13959 3' -64.2 NC_003521.1 + 100125 0.71 0.392839
Target:  5'- aCCCCgCGGCUGGcgguccugcgggaaGGCCgUGGgGCUCUu -3'
miRNA:   3'- cGGGGgGCCGACC--------------UCGG-ACCaCGAGG- -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.