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
24022 3' -54.2 NC_005262.1 + 49462 0.66 0.839626
Target:  5'- cCGCGGUgAUGAacgCGCGCGUcGCCg-- -3'
miRNA:   3'- -GCGCUAgUACUg--GUGCGCAcUGGacu -5'
24022 3' -54.2 NC_005262.1 + 16548 0.66 0.834364
Target:  5'- uGCGAagccgcucccguUCAcGGCCgcggaugccgagcagGCGCGUGugCUGGu -3'
miRNA:   3'- gCGCU------------AGUaCUGG---------------UGCGCACugGACU- -5'
24022 3' -54.2 NC_005262.1 + 43959 0.66 0.830814
Target:  5'- aCGUGAgCAUGAUCuacgaggcucuGCGCGUGAUCg-- -3'
miRNA:   3'- -GCGCUaGUACUGG-----------UGCGCACUGGacu -5'
24022 3' -54.2 NC_005262.1 + 37129 0.66 0.830814
Target:  5'- uCGCGAUCA--GCCGCcuguUGUGGCCgGAu -3'
miRNA:   3'- -GCGCUAGUacUGGUGc---GCACUGGaCU- -5'
24022 3' -54.2 NC_005262.1 + 44275 0.66 0.830814
Target:  5'- gCGCGAUUuucUGACCGCaGCGUucGCCUa- -3'
miRNA:   3'- -GCGCUAGu--ACUGGUG-CGCAc-UGGAcu -5'
24022 3' -54.2 NC_005262.1 + 2521 0.66 0.821797
Target:  5'- aGCGGUCG---UCAuCGCGUGGCgUGAa -3'
miRNA:   3'- gCGCUAGUacuGGU-GCGCACUGgACU- -5'
24022 3' -54.2 NC_005262.1 + 26953 0.66 0.821797
Target:  5'- -uCGAUCGUGACCGUGCGggagaGGCCa-- -3'
miRNA:   3'- gcGCUAGUACUGGUGCGCa----CUGGacu -5'
24022 3' -54.2 NC_005262.1 + 35427 0.66 0.821797
Target:  5'- uGCG-UCGUaGAUCGCgaaauGCGUGACCgUGAu -3'
miRNA:   3'- gCGCuAGUA-CUGGUG-----CGCACUGG-ACU- -5'
24022 3' -54.2 NC_005262.1 + 765 0.66 0.821797
Target:  5'- aCGCGcUCGUcGCCGagguucggGCGUGGCUUGAc -3'
miRNA:   3'- -GCGCuAGUAcUGGUg-------CGCACUGGACU- -5'
24022 3' -54.2 NC_005262.1 + 35262 0.66 0.818135
Target:  5'- gGCGGUCGUGACCucauugccgccaGCGUcGCCcgGAu -3'
miRNA:   3'- gCGCUAGUACUGGug----------CGCAcUGGa-CU- -5'
24022 3' -54.2 NC_005262.1 + 43997 0.66 0.812584
Target:  5'- cCGCGGUUGgcGCCGCGC-UGACCg-- -3'
miRNA:   3'- -GCGCUAGUacUGGUGCGcACUGGacu -5'
24022 3' -54.2 NC_005262.1 + 55750 0.66 0.803185
Target:  5'- uCGUGuUCGUGACCG-GCGUG-CCgGAc -3'
miRNA:   3'- -GCGCuAGUACUGGUgCGCACuGGaCU- -5'
24022 3' -54.2 NC_005262.1 + 43656 0.66 0.803185
Target:  5'- uGUGA-CAUGG-CACGUGgcGACCUGAa -3'
miRNA:   3'- gCGCUaGUACUgGUGCGCa-CUGGACU- -5'
24022 3' -54.2 NC_005262.1 + 10700 0.66 0.803185
Target:  5'- gCGCaGAUCGaGGCCGCGCGcacgcGGCCg-- -3'
miRNA:   3'- -GCG-CUAGUaCUGGUGCGCa----CUGGacu -5'
24022 3' -54.2 NC_005262.1 + 28562 0.66 0.79361
Target:  5'- gCGUGGUCAUGAUCGCGCa-GugCa-- -3'
miRNA:   3'- -GCGCUAGUACUGGUGCGcaCugGacu -5'
24022 3' -54.2 NC_005262.1 + 59632 0.66 0.79361
Target:  5'- uCGCGcuccUCGUGGCCcauuGCGCGcuUGACCUu- -3'
miRNA:   3'- -GCGCu---AGUACUGG----UGCGC--ACUGGAcu -5'
24022 3' -54.2 NC_005262.1 + 23727 0.66 0.792644
Target:  5'- gGCGAUCAcccugcuuUGACCAaccugcccgcaGCGUGcgggcuuuuucacACCUGAu -3'
miRNA:   3'- gCGCUAGU--------ACUGGUg----------CGCAC-------------UGGACU- -5'
24022 3' -54.2 NC_005262.1 + 12982 0.67 0.763935
Target:  5'- uCGaCGAcCGcGAcCCGCGCGUGACgUGGg -3'
miRNA:   3'- -GC-GCUaGUaCU-GGUGCGCACUGgACU- -5'
24022 3' -54.2 NC_005262.1 + 7137 0.67 0.749658
Target:  5'- aGCGAgCGUGAauggcucgcgaugCGCGCGaagGACCUGAc -3'
miRNA:   3'- gCGCUaGUACUg------------GUGCGCa--CUGGACU- -5'
24022 3' -54.2 NC_005262.1 + 48440 0.67 0.743467
Target:  5'- gGCGG-CAUGACCACGCGcGcguauGCCgcgcgGAu -3'
miRNA:   3'- gCGCUaGUACUGGUGCGCaC-----UGGa----CU- -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.