miRNA display CGI


Results 1 - 20 of 46 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
23027 3' -59.6 NC_005178.1 + 28699 0.66 0.398408
Target:  5'- aCCCCgACcagauggcgGCCGacaugugggccGGCAA--GGGCGGCg -3'
miRNA:   3'- -GGGGgUGa--------CGGU-----------CCGUUacUCCGCCG- -5'
23027 3' -59.6 NC_005178.1 + 10718 0.66 0.398408
Target:  5'- -aCUCACcGCCAGGau----GGCGGCa -3'
miRNA:   3'- ggGGGUGaCGGUCCguuacuCCGCCG- -5'
23027 3' -59.6 NC_005178.1 + 8750 0.66 0.398408
Target:  5'- gCCCU--UGCCguGGGCGacuuggccagcGUGcGGGCGGCg -3'
miRNA:   3'- gGGGGugACGG--UCCGU-----------UAC-UCCGCCG- -5'
23027 3' -59.6 NC_005178.1 + 9495 0.66 0.389327
Target:  5'- gUCCCg--GCUAGGCc--GGGGCGGUu -3'
miRNA:   3'- gGGGGugaCGGUCCGuuaCUCCGCCG- -5'
23027 3' -59.6 NC_005178.1 + 19894 0.66 0.389327
Target:  5'- gCCCUAUggaugUGCCGGGCu----GGCGGa -3'
miRNA:   3'- gGGGGUG-----ACGGUCCGuuacuCCGCCg -5'
23027 3' -59.6 NC_005178.1 + 2717 0.66 0.389327
Target:  5'- gCCgCGCUGCUgaacgccgcccuGGGC---GAGGUGGCc -3'
miRNA:   3'- gGGgGUGACGG------------UCCGuuaCUCCGCCG- -5'
23027 3' -59.6 NC_005178.1 + 4543 0.66 0.380383
Target:  5'- --aCCACUGCCGGuaGCGcUG-GGCGGg -3'
miRNA:   3'- gggGGUGACGGUC--CGUuACuCCGCCg -5'
23027 3' -59.6 NC_005178.1 + 8884 0.66 0.368963
Target:  5'- aCCCgGCacgcGCCGGGCGAcuuucuugccgaccUGGuGCGGCu -3'
miRNA:   3'- gGGGgUGa---CGGUCCGUU--------------ACUcCGCCG- -5'
23027 3' -59.6 NC_005178.1 + 28086 0.66 0.364633
Target:  5'- aCCCgCCAgcuaggggcgucuCUGCUuuccggguuuggccuGGGCGGUGGcaccgauGGCGGCg -3'
miRNA:   3'- -GGG-GGU-------------GACGG---------------UCCGUUACU-------CCGCCG- -5'
23027 3' -59.6 NC_005178.1 + 20797 0.66 0.362912
Target:  5'- gCUCUGCUGUUGGGuCA---GGGCGGCg -3'
miRNA:   3'- gGGGGUGACGGUCC-GUuacUCCGCCG- -5'
23027 3' -59.6 NC_005178.1 + 15785 0.67 0.346005
Target:  5'- uUCUCUGCgGCCgAGGCGuUGcgcGGCGGCu -3'
miRNA:   3'- -GGGGGUGaCGG-UCCGUuACu--CCGCCG- -5'
23027 3' -59.6 NC_005178.1 + 28494 0.67 0.345175
Target:  5'- aCUCCGCUGCUgcuGGaCAucaaccaacgaggAUG-GGCGGCg -3'
miRNA:   3'- gGGGGUGACGGu--CC-GU-------------UACuCCGCCG- -5'
23027 3' -59.6 NC_005178.1 + 25979 0.67 0.32967
Target:  5'- aUCCCGCUgGCCAGGCuGGUGAccacGuCGGUg -3'
miRNA:   3'- gGGGGUGA-CGGUCCG-UUACUc---C-GCCG- -5'
23027 3' -59.6 NC_005178.1 + 3684 0.67 0.325677
Target:  5'- aCCCCCGCcugacuguuguagGgCAGGCuguucuucauaucGAUGcccAGGCGGCc -3'
miRNA:   3'- -GGGGGUGa------------CgGUCCG-------------UUAC---UCCGCCG- -5'
23027 3' -59.6 NC_005178.1 + 17147 0.67 0.321719
Target:  5'- aCCCCUugcGCU-CCAGGUAcucaauGGCGGCc -3'
miRNA:   3'- -GGGGG---UGAcGGUCCGUuacu--CCGCCG- -5'
23027 3' -59.6 NC_005178.1 + 21459 0.67 0.313912
Target:  5'- aCUUCCAuggcgaucuuCUGCCAGGUggUGGGGgccgccgcgaaGGCg -3'
miRNA:   3'- -GGGGGU----------GACGGUCCGuuACUCCg----------CCG- -5'
23027 3' -59.6 NC_005178.1 + 21769 0.67 0.306249
Target:  5'- gCUCCGCUuuccaacgccaGCCAGGC-----GGCGGCg -3'
miRNA:   3'- gGGGGUGA-----------CGGUCCGuuacuCCGCCG- -5'
23027 3' -59.6 NC_005178.1 + 10858 0.68 0.29873
Target:  5'- aCgCUCGCgGCUGGGCucggccagGAUGGcGGCGGCg -3'
miRNA:   3'- -GgGGGUGaCGGUCCG--------UUACU-CCGCCG- -5'
23027 3' -59.6 NC_005178.1 + 22261 0.68 0.297244
Target:  5'- -gCCgACcGCCAGGCuggcccgccAGGCGGCg -3'
miRNA:   3'- ggGGgUGaCGGUCCGuuac-----UCCGCCG- -5'
23027 3' -59.6 NC_005178.1 + 33901 0.68 0.284123
Target:  5'- cCUgCCGC-GCCuggcGGCGAUGcucGGCGGCc -3'
miRNA:   3'- -GGgGGUGaCGGu---CCGUUACu--CCGCCG- -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.