miRNA display CGI


Results 1 - 20 of 30 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
23980 3' -63.5 NC_005262.1 + 5180 0.66 0.391569
Target:  5'- cCGGCGUcgCGGGCgCGGgcgCGGccgGCGcGAc -3'
miRNA:   3'- -GCCGCG--GCCCG-GCCa--GCCuuaCGC-CU- -5'
23980 3' -63.5 NC_005262.1 + 52034 0.66 0.358889
Target:  5'- aCGGCaugacgaucGCCGGcGCCuacaucgaGUcCGGggUGCGGGa -3'
miRNA:   3'- -GCCG---------CGGCC-CGGc-------CA-GCCuuACGCCU- -5'
23980 3' -63.5 NC_005262.1 + 14149 0.66 0.358097
Target:  5'- gCGuGCGCCGGgauuguccgccgcGCCGa--GGAGUGCGGc -3'
miRNA:   3'- -GC-CGCGGCC-------------CGGCcagCCUUACGCCu -5'
23980 3' -63.5 NC_005262.1 + 50019 0.66 0.351023
Target:  5'- -cGCcauCCGGGCCGGUCGucagGCGGu -3'
miRNA:   3'- gcCGc--GGCCCGGCCAGCcuuaCGCCu -5'
23980 3' -63.5 NC_005262.1 + 28815 0.67 0.34328
Target:  5'- aCGGCGuCCGGGCgcgCGGccUCGcg--GCGGAa -3'
miRNA:   3'- -GCCGC-GGCCCG---GCC--AGCcuuaCGCCU- -5'
23980 3' -63.5 NC_005262.1 + 16493 0.67 0.34328
Target:  5'- gCGGCGCagaaucccgGcGGCCGGcCGGg--GCGGGu -3'
miRNA:   3'- -GCCGCGg--------C-CCGGCCaGCCuuaCGCCU- -5'
23980 3' -63.5 NC_005262.1 + 46604 0.67 0.34328
Target:  5'- gGGCugcuGCgCGGGCaggggcgucgCGGUCGGAGUGCu-- -3'
miRNA:   3'- gCCG----CG-GCCCG----------GCCAGCCUUACGccu -5'
23980 3' -63.5 NC_005262.1 + 13048 0.67 0.33566
Target:  5'- uCGaCGCCGaGCCGGUCGGcGAUGCc-- -3'
miRNA:   3'- -GCcGCGGCcCGGCCAGCC-UUACGccu -5'
23980 3' -63.5 NC_005262.1 + 45994 0.67 0.332647
Target:  5'- uCGGCGCgCGcauCCGGUCGGAugccuucugcccGCGGAu -3'
miRNA:   3'- -GCCGCG-GCcc-GGCCAGCCUua----------CGCCU- -5'
23980 3' -63.5 NC_005262.1 + 38237 0.67 0.328165
Target:  5'- aCGGCuGCCGu-CUGGUUGGGAgcGCGGAa -3'
miRNA:   3'- -GCCG-CGGCccGGCCAGCCUUa-CGCCU- -5'
23980 3' -63.5 NC_005262.1 + 51466 0.67 0.320794
Target:  5'- aGGCGCgGccuuGGCCGGcgucgCGGAcgGCGcGGu -3'
miRNA:   3'- gCCGCGgC----CCGGCCa----GCCUuaCGC-CU- -5'
23980 3' -63.5 NC_005262.1 + 49836 0.67 0.313548
Target:  5'- gGGCGCgGGcGCCGccggcGUCGG--UGCGGc -3'
miRNA:   3'- gCCGCGgCC-CGGC-----CAGCCuuACGCCu -5'
23980 3' -63.5 NC_005262.1 + 25336 0.67 0.313548
Target:  5'- gCGGCGCaGGaGCCGGcguugcgcgCGGuucggGCGGAa -3'
miRNA:   3'- -GCCGCGgCC-CGGCCa--------GCCuua--CGCCU- -5'
23980 3' -63.5 NC_005262.1 + 39857 0.67 0.306427
Target:  5'- -cGCGUCGGGauGGUCGGcugGCGGc -3'
miRNA:   3'- gcCGCGGCCCggCCAGCCuuaCGCCu -5'
23980 3' -63.5 NC_005262.1 + 18484 0.68 0.292558
Target:  5'- aGGCGCuCGGaaGCCGGUgCGGGucGUGCa-- -3'
miRNA:   3'- gCCGCG-GCC--CGGCCA-GCCU--UACGccu -5'
23980 3' -63.5 NC_005262.1 + 40465 0.68 0.292558
Target:  5'- cCGGCcgugcauggGCCGGGCUGGUaucug-GCGGAc -3'
miRNA:   3'- -GCCG---------CGGCCCGGCCAgccuuaCGCCU- -5'
23980 3' -63.5 NC_005262.1 + 52335 0.68 0.292558
Target:  5'- aGGCGCCGGacgcguaucGCCGGau-GAagGCGGAc -3'
miRNA:   3'- gCCGCGGCC---------CGGCCagcCUuaCGCCU- -5'
23980 3' -63.5 NC_005262.1 + 24919 0.68 0.292558
Target:  5'- aGGaCGCCGaGGCaUGG-CGGGAUGCGc- -3'
miRNA:   3'- gCC-GCGGC-CCG-GCCaGCCUUACGCcu -5'
23980 3' -63.5 NC_005262.1 + 29141 0.68 0.292558
Target:  5'- gGGuUGCCGcGGCUGuUCGuGAUGCGGAa -3'
miRNA:   3'- gCC-GCGGC-CCGGCcAGCcUUACGCCU- -5'
23980 3' -63.5 NC_005262.1 + 43141 0.68 0.292558
Target:  5'- gCGGCGCgCGGuGCCGGcCGGGucgAUGUa-- -3'
miRNA:   3'- -GCCGCG-GCC-CGGCCaGCCU---UACGccu -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.