miRNA display CGI


Results 1 - 20 of 42 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
27458 3' -52.3 NC_005869.1 + 23332 0.66 0.738275
Target:  5'- -uCCACCAGCUgcuccuuGUugaUCAugGGCAGCc -3'
miRNA:   3'- guGGUGGUUGGu------CA---AGUugUCGUCGc -5'
27458 3' -52.3 NC_005869.1 + 17372 0.66 0.727022
Target:  5'- cCACCGCaCAcCCAGg-CAGguGCGGCu -3'
miRNA:   3'- -GUGGUG-GUuGGUCaaGUUguCGUCGc -5'
27458 3' -52.3 NC_005869.1 + 22865 0.66 0.727022
Target:  5'- uCACCAugcccucgucCCGG-CAGUgcugcgcgaUCAGCAGCAGCu -3'
miRNA:   3'- -GUGGU----------GGUUgGUCA---------AGUUGUCGUCGc -5'
27458 3' -52.3 NC_005869.1 + 14003 0.66 0.7088
Target:  5'- gACCACCAAcauccccaacgugacCCAGUacauguUCAGCAaCAGCu -3'
miRNA:   3'- gUGGUGGUU---------------GGUCA------AGUUGUcGUCGc -5'
27458 3' -52.3 NC_005869.1 + 26849 0.66 0.704209
Target:  5'- aCGCCAUCuuCCAGcagagCcGCGGCGGCc -3'
miRNA:   3'- -GUGGUGGuuGGUCaa---GuUGUCGUCGc -5'
27458 3' -52.3 NC_005869.1 + 19059 0.66 0.697297
Target:  5'- gCugCACC--CCGGggaugcuguuacgCAGCGGCAGCGu -3'
miRNA:   3'- -GugGUGGuuGGUCaa-----------GUUGUCGUCGC- -5'
27458 3' -52.3 NC_005869.1 + 17369 0.66 0.692675
Target:  5'- cCGCCGCCcgcuCCAGcgCcGCGGCcGCGc -3'
miRNA:   3'- -GUGGUGGuu--GGUCaaGuUGUCGuCGC- -5'
27458 3' -52.3 NC_005869.1 + 1923 0.66 0.692675
Target:  5'- aGCCGauggAGCUGGUggcgCAGCGGCAGCa -3'
miRNA:   3'- gUGGUgg--UUGGUCAa---GUUGUCGUCGc -5'
27458 3' -52.3 NC_005869.1 + 31056 0.66 0.692675
Target:  5'- cCACCACCAgggaGCUguAGcugUAGgAGCAGCGg -3'
miRNA:   3'- -GUGGUGGU----UGG--UCaa-GUUgUCGUCGC- -5'
27458 3' -52.3 NC_005869.1 + 23671 0.66 0.689201
Target:  5'- uGCCACUucugcuccugagcauCCAGcugCAGCAGCGGCc -3'
miRNA:   3'- gUGGUGGuu-------------GGUCaa-GUUGUCGUCGc -5'
27458 3' -52.3 NC_005869.1 + 27833 0.67 0.681074
Target:  5'- gCACCACCGaaGCCA--UCGcCcGCGGCGa -3'
miRNA:   3'- -GUGGUGGU--UGGUcaAGUuGuCGUCGC- -5'
27458 3' -52.3 NC_005869.1 + 25960 0.67 0.677583
Target:  5'- gCGCCGCCGggacuucuacuuccACCAcGUUCAGCGcCAGaCGg -3'
miRNA:   3'- -GUGGUGGU--------------UGGU-CAAGUUGUcGUC-GC- -5'
27458 3' -52.3 NC_005869.1 + 7873 0.67 0.669421
Target:  5'- cCACCugCAGCgCGGcgUC--CAGCAGCu -3'
miRNA:   3'- -GUGGugGUUG-GUCa-AGuuGUCGUCGc -5'
27458 3' -52.3 NC_005869.1 + 17565 0.67 0.646007
Target:  5'- nGCCGCCcGCCcg--CAGCGGCGGUc -3'
miRNA:   3'- gUGGUGGuUGGucaaGUUGUCGUCGc -5'
27458 3' -52.3 NC_005869.1 + 26760 0.67 0.646007
Target:  5'- -uCCAgCGAucuCCAGgaaggccgCAGCAGCGGCGg -3'
miRNA:   3'- guGGUgGUU---GGUCaa------GUUGUCGUCGC- -5'
27458 3' -52.3 NC_005869.1 + 17205 0.67 0.634273
Target:  5'- gGCCACC-GCCAcGggCGGCAGUGGgGu -3'
miRNA:   3'- gUGGUGGuUGGU-CaaGUUGUCGUCgC- -5'
27458 3' -52.3 NC_005869.1 + 16890 0.67 0.630752
Target:  5'- gCACCACCGGCuCGGUgcccacccccacggaGACGGUGGCc -3'
miRNA:   3'- -GUGGUGGUUG-GUCAag-------------UUGUCGUCGc -5'
27458 3' -52.3 NC_005869.1 + 26185 0.68 0.622536
Target:  5'- gCAgCACCAGCac---CAGCAGCAGCc -3'
miRNA:   3'- -GUgGUGGUUGgucaaGUUGUCGUCGc -5'
27458 3' -52.3 NC_005869.1 + 603 0.68 0.621363
Target:  5'- aACCACCAGCCcuGGUgcccggauuuugaUUGGCAGgAGCa -3'
miRNA:   3'- gUGGUGGUUGG--UCA-------------AGUUGUCgUCGc -5'
27458 3' -52.3 NC_005869.1 + 8505 0.68 0.587428
Target:  5'- -cCCGCguGCCGGccuccgcggccUCGGCGGCGGCGg -3'
miRNA:   3'- guGGUGguUGGUCa----------AGUUGUCGUCGC- -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.