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 + 97194 1.08 0.00089
Target:  5'- gAAGCUCGACAGGCUCCUGGAGCAGGCc -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 + 86245 0.67 0.609749
Target:  5'- -uGCUCuuCAGGCUCCUGcucAGCcuccuuAGGCu -3'
miRNA:   3'- uuCGAGcuGUCCGAGGACc--UCG------UCCG- -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 + 9530 0.67 0.568228
Target:  5'- cAGgaUGGCAGucgcuacCUCCUGGGGCAuGGCa -3'
miRNA:   3'- uUCgaGCUGUCc------GAGGACCUCGU-CCG- -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 + 78116 0.68 0.517422
Target:  5'- uAGCUCuccCAGGUUCCUGGccuggaacccAGuCAGGCc -3'
miRNA:   3'- uUCGAGcu-GUCCGAGGACC----------UC-GUCCG- -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 + 4991 0.68 0.506478
Target:  5'- aGGGaCUCugacgugGACAGGgUCCUGG-GCAGGg -3'
miRNA:   3'- -UUC-GAG-------CUGUCCgAGGACCuCGUCCg -5'
27233 3' -59.1 NC_005832.1 + 97464 0.68 0.497598
Target:  5'- cAAGCUCGACAGcgUCCUGG-GCAaGUa -3'
miRNA:   3'- -UUCGAGCUGUCcgAGGACCuCGUcCG- -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 + 86134 0.75 0.20847
Target:  5'- -uGCUCuGCAGGCUCCUGcugcugcucuGCAGGCu -3'
miRNA:   3'- uuCGAGcUGUCCGAGGACcu--------CGUCCG- -5'
27233 3' -59.1 NC_005832.1 + 86176 0.75 0.20847
Target:  5'- -uGCUCuGCAGGCUCCUGcugcugcucuGCAGGCu -3'
miRNA:   3'- uuCGAGcUGUCCGAGGACcu--------CGUCCG- -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 + 85919 0.72 0.30742
Target:  5'- uGGGCUUcGCAGGCUCCUGGAcCuuuugagGGGCc -3'
miRNA:   3'- -UUCGAGcUGUCCGAGGACCUcG-------UCCG- -5'
27233 3' -59.1 NC_005832.1 + 87517 0.72 0.311051
Target:  5'- cAGGCUggcggccauguaccaCGACGGGCUCCUGGAcucGGCc -3'
miRNA:   3'- -UUCGA---------------GCUGUCCGAGGACCUcguCCG- -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 + 97087 0.7 0.404335
Target:  5'- gAGGCccugUCGACcucagacGC-CCUGGAGCAGGCc -3'
miRNA:   3'- -UUCG----AGCUGuc-----CGaGGACCUCGUCCG- -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 + 15958 0.72 0.330457
Target:  5'- uGAGUaUCGACAGGgcCUCUUGGAGCGccucucccGGCa -3'
miRNA:   3'- -UUCG-AGCUGUCC--GAGGACCUCGU--------CCG- -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.