miRNA display CGI


Results 1 - 20 of 59 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
12422 5' -57.1 NC_003324.1 + 1574 0.67 0.55935
Target:  5'- -gGCCcgGCCGGAAGcaaugccauaGACGAagAUGGCGGa -3'
miRNA:   3'- gaCGG--UGGUCUUC----------CUGCUg-UGCCGCC- -5'
12422 5' -57.1 NC_003324.1 + 2530 0.68 0.548828
Target:  5'- -cGCCACCGacgaacaggcGAcGGACGGCagACGGCa- -3'
miRNA:   3'- gaCGGUGGU----------CUuCCUGCUG--UGCCGcc -5'
12422 5' -57.1 NC_003324.1 + 2686 0.67 0.612641
Target:  5'- -gGCCGCUucGGcAAGGgcACGAUgucgGCGGCGGc -3'
miRNA:   3'- gaCGGUGG--UC-UUCC--UGCUG----UGCCGCC- -5'
12422 5' -57.1 NC_003324.1 + 4719 0.7 0.419807
Target:  5'- -gGCUggaaauCCAGAAGG-CGGCugcuACGGCGGa -3'
miRNA:   3'- gaCGGu-----GGUCUUCCuGCUG----UGCCGCC- -5'
12422 5' -57.1 NC_003324.1 + 5058 0.66 0.634128
Target:  5'- -cGCCGCCA--AGGACccgaACGCGGCc- -3'
miRNA:   3'- gaCGGUGGUcuUCCUGc---UGUGCCGcc -5'
12422 5' -57.1 NC_003324.1 + 6104 0.66 0.666322
Target:  5'- aUGUCGUCGGcAGGAgcgGACugGGCGGc -3'
miRNA:   3'- gACGGUGGUCuUCCUg--CUGugCCGCC- -5'
12422 5' -57.1 NC_003324.1 + 6845 1.09 0.00076
Target:  5'- gCUGCCACCAGAAGGACGACACGGCGGc -3'
miRNA:   3'- -GACGGUGGUCUUCCUGCUGUGCCGCC- -5'
12422 5' -57.1 NC_003324.1 + 9485 0.66 0.622306
Target:  5'- -cGCUACCuGAAgaaugguGGcACGGC-CGGCGGc -3'
miRNA:   3'- gaCGGUGGuCUU-------CC-UGCUGuGCCGCC- -5'
12422 5' -57.1 NC_003324.1 + 10399 0.71 0.358345
Target:  5'- aCUGUUuCUAGGAgcGGAUGcACGCGGCGGa -3'
miRNA:   3'- -GACGGuGGUCUU--CCUGC-UGUGCCGCC- -5'
12422 5' -57.1 NC_003324.1 + 10697 0.69 0.497286
Target:  5'- -aGCCacgGCCAGcguuGGGCGACugGG-GGa -3'
miRNA:   3'- gaCGG---UGGUCuu--CCUGCUGugCCgCC- -5'
12422 5' -57.1 NC_003324.1 + 10847 0.67 0.580552
Target:  5'- gUGCUuCCGGuGAGGAaGACuuGGCGGu -3'
miRNA:   3'- gACGGuGGUC-UUCCUgCUGugCCGCC- -5'
12422 5' -57.1 NC_003324.1 + 11223 0.69 0.45767
Target:  5'- -gGCCGCCAGAccGGCGAaGCGGaccaaGGu -3'
miRNA:   3'- gaCGGUGGUCUucCUGCUgUGCCg----CC- -5'
12422 5' -57.1 NC_003324.1 + 14581 0.66 0.623381
Target:  5'- cCUGCCGgCGcAAGcggccGGCGGCGCaGGCGGu -3'
miRNA:   3'- -GACGGUgGUcUUC-----CUGCUGUG-CCGCC- -5'
12422 5' -57.1 NC_003324.1 + 14809 0.7 0.398912
Target:  5'- -cGCgGCCGGcaucggcagcuuccuGGGCGGCAuCGGCGGa -3'
miRNA:   3'- gaCGgUGGUCuu-------------CCUGCUGU-GCCGCC- -5'
12422 5' -57.1 NC_003324.1 + 15116 0.73 0.296175
Target:  5'- aUGCCAUCGGucucGGcguCGACACGGCGc -3'
miRNA:   3'- gACGGUGGUCuu--CCu--GCUGUGCCGCc -5'
12422 5' -57.1 NC_003324.1 + 15562 0.7 0.392686
Target:  5'- -cGCCgACCGGGuucagaaguGGGcCGACACGGCa- -3'
miRNA:   3'- gaCGG-UGGUCU---------UCCuGCUGUGCCGcc -5'
12422 5' -57.1 NC_003324.1 + 16805 0.69 0.487232
Target:  5'- -gGCCAgCAGGGuGACGGCAagcaucaaGGCGGc -3'
miRNA:   3'- gaCGGUgGUCUUcCUGCUGUg-------CCGCC- -5'
12422 5' -57.1 NC_003324.1 + 18453 0.69 0.486232
Target:  5'- uUGCCGCCGGucGGGuucaugacccaauCGugACGGCu- -3'
miRNA:   3'- gACGGUGGUCuuCCU-------------GCugUGCCGcc -5'
12422 5' -57.1 NC_003324.1 + 18649 0.66 0.677005
Target:  5'- -cGUCGCCAGugaaaccGGACGugcccuUGCGGUGGa -3'
miRNA:   3'- gaCGGUGGUCuu-----CCUGCu-----GUGCCGCC- -5'
12422 5' -57.1 NC_003324.1 + 19846 0.67 0.55935
Target:  5'- aUGCCGCCGG-GGGACGcgaACAgacCGGCc- -3'
miRNA:   3'- gACGGUGGUCuUCCUGC---UGU---GCCGcc -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.