miRNA display CGI


Results 1 - 20 of 37 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
27233 3' -59.1 NC_005832.1 + 4991 0.68 0.506478
Target:  5'- aGGGaCUCugacgugGACAGGgUCCUGG-GCAGGg -3'
miRNA:   3'- -UUC-GAG-------CUGUCCgAGGACCuCGUCCg -5'
27233 3' -59.1 NC_005832.1 + 7814 0.73 0.267013
Target:  5'- aGAGUcCuACAGGCUCCUcaGGGGCAGGg -3'
miRNA:   3'- -UUCGaGcUGUCCGAGGA--CCUCGUCCg -5'
27233 3' -59.1 NC_005832.1 + 9530 0.67 0.568228
Target:  5'- cAGgaUGGCAGucgcuacCUCCUGGGGCAuGGCa -3'
miRNA:   3'- uUCgaGCUGUCc------GAGGACCUCGU-CCG- -5'
27233 3' -59.1 NC_005832.1 + 9604 0.7 0.404335
Target:  5'- gGAGCUCcuccACA---UCCUGGGGCAGGCu -3'
miRNA:   3'- -UUCGAGc---UGUccgAGGACCUCGUCCG- -5'
27233 3' -59.1 NC_005832.1 + 10118 0.68 0.537553
Target:  5'- aGAGUUUGAC-GGCUCCagGGAGUgcgaguacgggAGGUg -3'
miRNA:   3'- -UUCGAGCUGuCCGAGGa-CCUCG-----------UCCG- -5'
27233 3' -59.1 NC_005832.1 + 10338 0.66 0.651544
Target:  5'- cGGGUUCccauGACAGGCUCaaggccaggGGAG-AGGCg -3'
miRNA:   3'- -UUCGAG----CUGUCCGAGga-------CCUCgUCCG- -5'
27233 3' -59.1 NC_005832.1 + 15958 0.72 0.330457
Target:  5'- uGAGUaUCGACAGGgcCUCUUGGAGCGccucucccGGCa -3'
miRNA:   3'- -UUCG-AGCUGUCC--GAGGACCUCGU--------CCG- -5'
27233 3' -59.1 NC_005832.1 + 21134 0.69 0.439429
Target:  5'- gAGGC-CGGCGGGagcugggaUCCUGGAGgacagagccaguuCAGGCg -3'
miRNA:   3'- -UUCGaGCUGUCCg-------AGGACCUC-------------GUCCG- -5'
27233 3' -59.1 NC_005832.1 + 31314 0.67 0.588923
Target:  5'- cAGUagGAUccugGGGCUC--GGAGCAGGCa -3'
miRNA:   3'- uUCGagCUG----UCCGAGgaCCUCGUCCG- -5'
27233 3' -59.1 NC_005832.1 + 32410 0.66 0.661974
Target:  5'- cGAGUgucccguggCGACuGGCUCC-GGGGCccuaaAGGCc -3'
miRNA:   3'- -UUCGa--------GCUGuCCGAGGaCCUCG-----UCCG- -5'
27233 3' -59.1 NC_005832.1 + 40796 0.68 0.531484
Target:  5'- -uGCUCGAgAGGUacgagucuccucccgUUCUGGAGguGGa -3'
miRNA:   3'- uuCGAGCUgUCCG---------------AGGACCUCguCCg -5'
27233 3' -59.1 NC_005832.1 + 46095 0.68 0.507469
Target:  5'- cAAGCagG-UGGGUUCCUGGuGCAGGg -3'
miRNA:   3'- -UUCGagCuGUCCGAGGACCuCGUCCg -5'
27233 3' -59.1 NC_005832.1 + 46662 0.68 0.516423
Target:  5'- ----gUGGCGGGCUCCaGGAaugccaggcgccuGCAGGCg -3'
miRNA:   3'- uucgaGCUGUCCGAGGaCCU-------------CGUCCG- -5'
27233 3' -59.1 NC_005832.1 + 53581 0.67 0.599323
Target:  5'- -uGUUCcaugGACcccgcgGGGUUCgaGGAGCAGGCg -3'
miRNA:   3'- uuCGAG----CUG------UCCGAGgaCCUCGUCCG- -5'
27233 3' -59.1 NC_005832.1 + 53979 0.68 0.527451
Target:  5'- cGGCuUCGGCAagaccuucauGGC-CCUGGAGCuguggaggAGGCu -3'
miRNA:   3'- uUCG-AGCUGU----------CCGaGGACCUCG--------UCCG- -5'
27233 3' -59.1 NC_005832.1 + 54764 0.7 0.409618
Target:  5'- cGGCggacgUCGACAGGUacuuugagcagugCCUGG-GCAGGCu -3'
miRNA:   3'- uUCG-----AGCUGUCCGa------------GGACCuCGUCCG- -5'
27233 3' -59.1 NC_005832.1 + 55107 0.67 0.568228
Target:  5'- uGGC-CGuCGGGUUCgaGGcGCAGGCc -3'
miRNA:   3'- uUCGaGCuGUCCGAGgaCCuCGUCCG- -5'
27233 3' -59.1 NC_005832.1 + 56135 0.66 0.641098
Target:  5'- aAAGUaCGAgAGcGuCUCCUGGAGCuugacGGCc -3'
miRNA:   3'- -UUCGaGCUgUC-C-GAGGACCUCGu----CCG- -5'
27233 3' -59.1 NC_005832.1 + 56543 0.7 0.431175
Target:  5'- -cGCUCccgugggaGugGGGUUCCUGGccGGCAGGa -3'
miRNA:   3'- uuCGAG--------CugUCCGAGGACC--UCGUCCg -5'
27233 3' -59.1 NC_005832.1 + 68940 0.68 0.546701
Target:  5'- --uCUCGACGGGCcaUCC-GGAGCccgcuaaaaaguaGGGCa -3'
miRNA:   3'- uucGAGCUGUCCG--AGGaCCUCG-------------UCCG- -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.