miRNA display CGI


Results 1 - 20 of 66 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
5324 3' -57 NC_001798.1 + 370 0.72 0.532976
Target:  5'- gGGGGGGUguuuuuugGGGGGGGGCgcgAAgGCgggCGg -3'
miRNA:   3'- gCCCCUCA--------UCCCCCUCGa--UUgUGa--GC- -5'
5324 3' -57 NC_001798.1 + 985 0.68 0.761314
Target:  5'- uGGGGcGGaAGGGGGcGCUGcggcccGCGCUCc -3'
miRNA:   3'- gCCCC-UCaUCCCCCuCGAU------UGUGAGc -5'
5324 3' -57 NC_001798.1 + 2573 0.72 0.562558
Target:  5'- cCGGGGAaaAGGGGGGGcCUGAgACcCGg -3'
miRNA:   3'- -GCCCCUcaUCCCCCUC-GAUUgUGaGC- -5'
5324 3' -57 NC_001798.1 + 4662 0.67 0.832187
Target:  5'- uGGGGGGcgAGGGGcGAGCgcggGGCGg-CGg -3'
miRNA:   3'- gCCCCUCa-UCCCC-CUCGa---UUGUgaGC- -5'
5324 3' -57 NC_001798.1 + 5902 0.68 0.779874
Target:  5'- uCGGGG-GUGGGGGcGGCUu---CUCGu -3'
miRNA:   3'- -GCCCCuCAUCCCCcUCGAuuguGAGC- -5'
5324 3' -57 NC_001798.1 + 7133 0.74 0.430349
Target:  5'- gCGGGGAG-AGGGGGGGggGGCGggCGg -3'
miRNA:   3'- -GCCCCUCaUCCCCCUCgaUUGUgaGC- -5'
5324 3' -57 NC_001798.1 + 8394 0.66 0.863621
Target:  5'- aGGGGGGgGGGGGGAGagggaaAGCAa-CGg -3'
miRNA:   3'- gCCCCUCaUCCCCCUCga----UUGUgaGC- -5'
5324 3' -57 NC_001798.1 + 22248 0.66 0.880944
Target:  5'- gGGGcGGGUacggacucuccgcaAGGGGGAGCUgcugaucuacauGgacggguccggggcGCGCUCGg -3'
miRNA:   3'- gCCC-CUCA--------------UCCCCCUCGA------------U--------------UGUGAGC- -5'
5324 3' -57 NC_001798.1 + 24881 0.67 0.856053
Target:  5'- gGGGGAGgAGGGGG-GUgGugGC-CGa -3'
miRNA:   3'- gCCCCUCaUCCCCCuCGaUugUGaGC- -5'
5324 3' -57 NC_001798.1 + 29092 0.66 0.870986
Target:  5'- gCGGGcGAGgcGGGGGcGGCUGAgG-UCa -3'
miRNA:   3'- -GCCC-CUCauCCCCC-UCGAUUgUgAGc -5'
5324 3' -57 NC_001798.1 + 30243 0.67 0.835465
Target:  5'- uGGcGG---GGGGGGGGCUGcgggcgugucgucccACACUCGc -3'
miRNA:   3'- gCC-CCucaUCCCCCUCGAU---------------UGUGAGC- -5'
5324 3' -57 NC_001798.1 + 40997 0.67 0.832187
Target:  5'- aCGGGGGuGUGGcGGGGGGgUAuuaaggcagggGCAgCUCGc -3'
miRNA:   3'- -GCCCCU-CAUC-CCCCUCgAU-----------UGU-GAGC- -5'
5324 3' -57 NC_001798.1 + 43102 0.77 0.325424
Target:  5'- uCGGGGGcgcucGgcGGGGGGGCggaagaGACGCUCGg -3'
miRNA:   3'- -GCCCCU-----CauCCCCCUCGa-----UUGUGAGC- -5'
5324 3' -57 NC_001798.1 + 43402 0.67 0.832187
Target:  5'- gCGGGGA--AGGGGGAcauGCgc-CGCUCc -3'
miRNA:   3'- -GCCCCUcaUCCCCCU---CGauuGUGAGc -5'
5324 3' -57 NC_001798.1 + 46883 0.68 0.788965
Target:  5'- gCGcGGGGGUucGGGGccaGGGCUGGCAC-CGu -3'
miRNA:   3'- -GC-CCCUCAu-CCCC---CUCGAUUGUGaGC- -5'
5324 3' -57 NC_001798.1 + 52876 0.67 0.815377
Target:  5'- aGGGGGGUgggcgugugcGGGGGaGGGCUGAUGuagCGg -3'
miRNA:   3'- gCCCCUCA----------UCCCC-CUCGAUUGUga-GC- -5'
5324 3' -57 NC_001798.1 + 53407 0.69 0.751862
Target:  5'- uGGGGG--GGGGGGGGCgUGugACUa- -3'
miRNA:   3'- gCCCCUcaUCCCCCUCG-AUugUGAgc -5'
5324 3' -57 NC_001798.1 + 53504 0.67 0.823867
Target:  5'- -aGGGAGgGGaGGGGAGCUGG-GCUUGu -3'
miRNA:   3'- gcCCCUCaUC-CCCCUCGAUUgUGAGC- -5'
5324 3' -57 NC_001798.1 + 53966 0.69 0.713113
Target:  5'- -uGGGAGUAGuGGGGGGCgggugucGGCcguCUCGg -3'
miRNA:   3'- gcCCCUCAUC-CCCCUCGa------UUGu--GAGC- -5'
5324 3' -57 NC_001798.1 + 66710 0.71 0.588544
Target:  5'- cCGGGGAGggcagggccgcuGGGGGGGCgg--GCUCGu -3'
miRNA:   3'- -GCCCCUCau----------CCCCCUCGauugUGAGC- -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.