miRNA display CGI


Results 1 - 20 of 34 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
30572 3' -54.1 NC_006548.1 + 18796 0.66 0.717501
Target:  5'- gCGUCgagcagcaCGGCCUGCGGcUGGGCgaggaucUGCg -3'
miRNA:   3'- gGCAG--------GCCGGACGUCuACUUGau-----GCG- -5'
30572 3' -54.1 NC_006548.1 + 7473 0.66 0.717501
Target:  5'- uUCGaCCuGCCUGCAGA---GCUugGUc -3'
miRNA:   3'- -GGCaGGcCGGACGUCUacuUGAugCG- -5'
30572 3' -54.1 NC_006548.1 + 24414 0.66 0.706509
Target:  5'- uCCGgcccagaCCGGCCUGCucAGuuugccauUGGGCagGCGCu -3'
miRNA:   3'- -GGCa------GGCCGGACG--UCu-------ACUUGa-UGCG- -5'
30572 3' -54.1 NC_006548.1 + 32431 0.66 0.69544
Target:  5'- gCCGUUcgCGGCgCUGCAGGagcgcaucUGGACUGuggcCGUg -3'
miRNA:   3'- -GGCAG--GCCG-GACGUCU--------ACUUGAU----GCG- -5'
30572 3' -54.1 NC_006548.1 + 23803 0.66 0.69544
Target:  5'- cCCG-CCGGCCaUGCcGGUG----GCGCg -3'
miRNA:   3'- -GGCaGGCCGG-ACGuCUACuugaUGCG- -5'
30572 3' -54.1 NC_006548.1 + 28903 0.67 0.661896
Target:  5'- aCCGUCgaggCGGCCgGCgccgagaucgAGAaGAAgUACGCg -3'
miRNA:   3'- -GGCAG----GCCGGaCG----------UCUaCUUgAUGCG- -5'
30572 3' -54.1 NC_006548.1 + 31477 0.67 0.639368
Target:  5'- --uUCCGGCC-GguGAUGAuugGCU-CGCu -3'
miRNA:   3'- ggcAGGCCGGaCguCUACU---UGAuGCG- -5'
30572 3' -54.1 NC_006548.1 + 23894 0.67 0.628089
Target:  5'- gCGUCaCuGCa-GCGGAUGAcCUGCGCc -3'
miRNA:   3'- gGCAG-GcCGgaCGUCUACUuGAUGCG- -5'
30572 3' -54.1 NC_006548.1 + 33396 0.67 0.628089
Target:  5'- uCUG-CCGGCCacGCAGGgcguacagcaGGCUGCGCa -3'
miRNA:   3'- -GGCaGGCCGGa-CGUCUac--------UUGAUGCG- -5'
30572 3' -54.1 NC_006548.1 + 24533 0.67 0.616812
Target:  5'- gCGaUCUgGGCCUcGCAGAUcGAGCUGCccGCc -3'
miRNA:   3'- gGC-AGG-CCGGA-CGUCUA-CUUGAUG--CG- -5'
30572 3' -54.1 NC_006548.1 + 25077 0.67 0.614559
Target:  5'- cCCGccCCGGCCaccgauccagggGCGGAUGAcCUGCa- -3'
miRNA:   3'- -GGCa-GGCCGGa-----------CGUCUACUuGAUGcg -5'
30572 3' -54.1 NC_006548.1 + 16303 0.68 0.594313
Target:  5'- --cUCUGGCCUGCAGGUGccCaACGa -3'
miRNA:   3'- ggcAGGCCGGACGUCUACuuGaUGCg -5'
30572 3' -54.1 NC_006548.1 + 20973 0.68 0.583108
Target:  5'- -aGUUCGGCCaGCA----AGCUGCGCa -3'
miRNA:   3'- ggCAGGCCGGaCGUcuacUUGAUGCG- -5'
30572 3' -54.1 NC_006548.1 + 29318 0.68 0.567496
Target:  5'- gCGaUCCGGUaucgagaauggcaUGCAgGAUGcGCUGCGCg -3'
miRNA:   3'- gGC-AGGCCGg------------ACGU-CUACuUGAUGCG- -5'
30572 3' -54.1 NC_006548.1 + 35729 0.68 0.560837
Target:  5'- -aGUCCGGUCgaGCGGGaaagGAACUgagugGCGCc -3'
miRNA:   3'- ggCAGGCCGGa-CGUCUa---CUUGA-----UGCG- -5'
30572 3' -54.1 NC_006548.1 + 19954 0.68 0.560837
Target:  5'- aCGUgCCGGCCgGCGGG-GAGgaUugGCa -3'
miRNA:   3'- gGCA-GGCCGGaCGUCUaCUUg-AugCG- -5'
30572 3' -54.1 NC_006548.1 + 31882 0.68 0.549787
Target:  5'- cCUGauUUCGGUCUGUgccGGAUGGACUuccuCGCg -3'
miRNA:   3'- -GGC--AGGCCGGACG---UCUACUUGAu---GCG- -5'
30572 3' -54.1 NC_006548.1 + 33874 0.69 0.538806
Target:  5'- gCGgCCGGUgaGCGacGAUGGACgGCGCa -3'
miRNA:   3'- gGCaGGCCGgaCGU--CUACUUGaUGCG- -5'
30572 3' -54.1 NC_006548.1 + 33295 0.69 0.538806
Target:  5'- aCC-UCCGGCCgcgaggaGCAuGcgGcGCUGCGCa -3'
miRNA:   3'- -GGcAGGCCGGa------CGU-CuaCuUGAUGCG- -5'
30572 3' -54.1 NC_006548.1 + 17584 0.69 0.5279
Target:  5'- gCUG-CUuGCCUGCucGAUGAGCgUGCGCa -3'
miRNA:   3'- -GGCaGGcCGGACGu-CUACUUG-AUGCG- -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.