miRNA display CGI


Results 1 - 20 of 56 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
21219 3' -58.2 NC_004778.3 + 1654 0.66 0.813376
Target:  5'- aGCGACGCGucguuGGCACCuuCGGUUUGggugCGg -3'
miRNA:   3'- -UGCUGCGC-----CUGUGGugGUCGAGCa---GC- -5'
21219 3' -58.2 NC_004778.3 + 2069 0.67 0.730528
Target:  5'- cACGAUcugaugGCGGAuCACC-CCAGUUuCGUCa -3'
miRNA:   3'- -UGCUG------CGCCU-GUGGuGGUCGA-GCAGc -5'
21219 3' -58.2 NC_004778.3 + 7156 0.71 0.511771
Target:  5'- gGCGG-GCGGcGCGCCgagcACUAGCUCGUUGa -3'
miRNA:   3'- -UGCUgCGCC-UGUGG----UGGUCGAGCAGC- -5'
21219 3' -58.2 NC_004778.3 + 8483 0.66 0.8047
Target:  5'- -gGGCGCGGcccGCGCCccGCCAGUcaUCGUa- -3'
miRNA:   3'- ugCUGCGCC---UGUGG--UGGUCG--AGCAgc -5'
21219 3' -58.2 NC_004778.3 + 10068 0.66 0.813376
Target:  5'- cCGACGCaGuaaACugCGCCAGCUCa--- -3'
miRNA:   3'- uGCUGCGcC---UGugGUGGUCGAGcagc -5'
21219 3' -58.2 NC_004778.3 + 14508 0.66 0.821891
Target:  5'- -aGGcCGCGGuGCGCaCGCCGGCUUG-CGc -3'
miRNA:   3'- ugCU-GCGCC-UGUG-GUGGUCGAGCaGC- -5'
21219 3' -58.2 NC_004778.3 + 16286 0.7 0.590569
Target:  5'- uACGACGCGGuuguaaACgUGCCGGCaggCGUCGg -3'
miRNA:   3'- -UGCUGCGCCug----UG-GUGGUCGa--GCAGC- -5'
21219 3' -58.2 NC_004778.3 + 16927 0.67 0.748793
Target:  5'- cGCGAgccguuaCGCGGcGCACaugCACCGGCUCGaguucUCGg -3'
miRNA:   3'- -UGCU-------GCGCC-UGUG---GUGGUCGAGC-----AGC- -5'
21219 3' -58.2 NC_004778.3 + 18344 0.69 0.630865
Target:  5'- --aACGCuGGACGCCAaCAGCUCGcgCGa -3'
miRNA:   3'- ugcUGCG-CCUGUGGUgGUCGAGCa-GC- -5'
21219 3' -58.2 NC_004778.3 + 19433 0.71 0.544831
Target:  5'- uCGGCGCGccgaaACACCguggucaccaccgacACCAGCUUGUCGu -3'
miRNA:   3'- uGCUGCGCc----UGUGG---------------UGGUCGAGCAGC- -5'
21219 3' -58.2 NC_004778.3 + 25889 0.76 0.289476
Target:  5'- cGCGAcCGUGGGCGCUGgCAcGCUCGUCGc -3'
miRNA:   3'- -UGCU-GCGCCUGUGGUgGU-CGAGCAGC- -5'
21219 3' -58.2 NC_004778.3 + 29166 0.72 0.455629
Target:  5'- cGCGAgCGCGuGACGCUGCCacGGgUCGUCGc -3'
miRNA:   3'- -UGCU-GCGC-CUGUGGUGG--UCgAGCAGC- -5'
21219 3' -58.2 NC_004778.3 + 30721 0.66 0.825251
Target:  5'- cACGcUGCGGcCGCgGCCGGCUgccaucgaaaguucgCGUCGc -3'
miRNA:   3'- -UGCuGCGCCuGUGgUGGUCGA---------------GCAGC- -5'
21219 3' -58.2 NC_004778.3 + 34049 0.72 0.446593
Target:  5'- uGCGACGCGcuugcuugaaACACCacguccgcguccGCCAGCUCGUUGu -3'
miRNA:   3'- -UGCUGCGCc---------UGUGG------------UGGUCGAGCAGC- -5'
21219 3' -58.2 NC_004778.3 + 34151 0.68 0.701104
Target:  5'- gACGACGCGGuCGCCGgCGGCg----- -3'
miRNA:   3'- -UGCUGCGCCuGUGGUgGUCGagcagc -5'
21219 3' -58.2 NC_004778.3 + 34601 0.69 0.64096
Target:  5'- uGCGGCGCGcaAC-CCACCGGCaCGUUGc -3'
miRNA:   3'- -UGCUGCGCc-UGuGGUGGUCGaGCAGC- -5'
21219 3' -58.2 NC_004778.3 + 36467 0.72 0.483308
Target:  5'- gUGugGUGGGCGCCACCAcgcGCUUGg-- -3'
miRNA:   3'- uGCugCGCCUGUGGUGGU---CGAGCagc -5'
21219 3' -58.2 NC_004778.3 + 36512 0.7 0.549754
Target:  5'- gACGACGCGGGugucgcgaggccuUACCuaugcgacGCCGGCUCGcugCGg -3'
miRNA:   3'- -UGCUGCGCCU-------------GUGG--------UGGUCGAGCa--GC- -5'
21219 3' -58.2 NC_004778.3 + 38459 0.72 0.483308
Target:  5'- uCGuCGCGGuuccGCAUCAcguaugaguCCAGCUCGUCGa -3'
miRNA:   3'- uGCuGCGCC----UGUGGU---------GGUCGAGCAGC- -5'
21219 3' -58.2 NC_004778.3 + 43856 0.66 0.795872
Target:  5'- cCGACGCGGcaACAgguGCCGGCUCGg-- -3'
miRNA:   3'- uGCUGCGCC--UGUgg-UGGUCGAGCagc -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.