miRNA display CGI


Results 1 - 20 of 46 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
11455 3' -61 NC_003085.1 + 20286 0.66 0.420708
Target:  5'- uGAGGCGAAGCccaaGGCCguGCCcaacgCGcCCg -3'
miRNA:   3'- gCUCCGCUUCGc---CCGG--UGGa----GCaGGa -5'
11455 3' -61 NC_003085.1 + 31735 0.67 0.343409
Target:  5'- aCGAgauuGGCGGAcucauCGGGCgCACCuUCGUCCc -3'
miRNA:   3'- -GCU----CCGCUUc----GCCCG-GUGG-AGCAGGa -5'
11455 3' -61 NC_003085.1 + 9153 0.67 0.351475
Target:  5'- --uGGCGGAGCucGCCGCCgcgcaGUCCUg -3'
miRNA:   3'- gcuCCGCUUCGccCGGUGGag---CAGGA- -5'
11455 3' -61 NC_003085.1 + 48447 0.67 0.351475
Target:  5'- gCGAGGCcgcGAGCauaGGCCACCUCaG-CCUu -3'
miRNA:   3'- -GCUCCGc--UUCGc--CCGGUGGAG-CaGGA- -5'
11455 3' -61 NC_003085.1 + 49096 0.67 0.358024
Target:  5'- cCGAGGaGggGCcccucgugcugacgGGGCCccggugcucagucguCCUCGUCCUc -3'
miRNA:   3'- -GCUCCgCuuCG--------------CCCGGu--------------GGAGCAGGA- -5'
11455 3' -61 NC_003085.1 + 1638 0.67 0.368006
Target:  5'- gGAGGCGuAGUcauGGCCugC-CGUCCc -3'
miRNA:   3'- gCUCCGCuUCGc--CCGGugGaGCAGGa -5'
11455 3' -61 NC_003085.1 + 35071 0.66 0.385064
Target:  5'- uGGGGCccuAGCGGGUCugccCCUCaUCCg -3'
miRNA:   3'- gCUCCGcu-UCGCCCGGu---GGAGcAGGa -5'
11455 3' -61 NC_003085.1 + 23680 0.66 0.385064
Target:  5'- -cAGGCGuccacgcAGCGGGCCcgcgcagcaGCCUCcUCCg -3'
miRNA:   3'- gcUCCGCu------UCGCCCGG---------UGGAGcAGGa -5'
11455 3' -61 NC_003085.1 + 43836 0.66 0.420708
Target:  5'- uGAGGuCGcgcAGGCGGGCguUCUCcUCCUc -3'
miRNA:   3'- gCUCC-GC---UUCGCCCGguGGAGcAGGA- -5'
11455 3' -61 NC_003085.1 + 33643 0.67 0.327681
Target:  5'- -cAGGCGAAGaGGGCCACggCGgCCa -3'
miRNA:   3'- gcUCCGCUUCgCCCGGUGgaGCaGGa -5'
11455 3' -61 NC_003085.1 + 22920 0.67 0.327681
Target:  5'- cCGGGGCGAAGCccuccgaGGCCGCgUCGa--- -3'
miRNA:   3'- -GCUCCGCUUCGc------CCGGUGgAGCagga -5'
11455 3' -61 NC_003085.1 + 48525 0.67 0.327681
Target:  5'- uCGGcGGCGAGggcGCGGGCCuuCCa-GUCCUc -3'
miRNA:   3'- -GCU-CCGCUU---CGCCCGGu-GGagCAGGA- -5'
11455 3' -61 NC_003085.1 + 42381 0.71 0.175098
Target:  5'- uCGGcGGCauGAGcGCGGGCCuuguccuCCUCGUCCa -3'
miRNA:   3'- -GCU-CCG--CUU-CGCCCGGu------GGAGCAGGa -5'
11455 3' -61 NC_003085.1 + 30702 0.71 0.187421
Target:  5'- gGAGGCGAAGCGGcGCaagggggaagcggACCggCGUCCc -3'
miRNA:   3'- gCUCCGCUUCGCC-CGg------------UGGa-GCAGGa -5'
11455 3' -61 NC_003085.1 + 16891 0.7 0.210018
Target:  5'- aCGAGGCcGAGCGaugaGCCACCUCGcaccCCa -3'
miRNA:   3'- -GCUCCGcUUCGCc---CGGUGGAGCa---GGa -5'
11455 3' -61 NC_003085.1 + 46949 0.69 0.250777
Target:  5'- aGGGGcCGAcGCGGGCaCACCgucCGUCa- -3'
miRNA:   3'- gCUCC-GCUuCGCCCG-GUGGa--GCAGga -5'
11455 3' -61 NC_003085.1 + 25362 0.69 0.256467
Target:  5'- gGAcGGUGAcgggcacgccgacGGCGGGCuuCACCgUCGUCCa -3'
miRNA:   3'- gCU-CCGCU-------------UCGCCCG--GUGG-AGCAGGa -5'
11455 3' -61 NC_003085.1 + 39494 0.69 0.276877
Target:  5'- uCGAGGCgcucgaGAAGCcGGUgCGCCUCGUCgCUg -3'
miRNA:   3'- -GCUCCG------CUUCGcCCG-GUGGAGCAG-GA- -5'
11455 3' -61 NC_003085.1 + 19412 0.68 0.305099
Target:  5'- -aAGGCccaGGGCGGcGCCACCUgGUUCg -3'
miRNA:   3'- gcUCCGc--UUCGCC-CGGUGGAgCAGGa -5'
11455 3' -61 NC_003085.1 + 34301 0.67 0.327681
Target:  5'- cCGA-GCGucGCGGGCagggCACCgaggCGUCCa -3'
miRNA:   3'- -GCUcCGCuuCGCCCG----GUGGa---GCAGGa -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.