miRNA display CGI


Results 1 - 20 of 36 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
12334 3' -53.1 NC_003324.1 + 45686 0.8 0.159647
Target:  5'- gCAGgGGCU-CGGCGAGGCG-UGAGCAg -3'
miRNA:   3'- -GUCgUUGAuGCCGCUCUGCuACUCGU- -5'
12334 3' -53.1 NC_003324.1 + 49349 0.66 0.837944
Target:  5'- gCGGCGccaACaGCGGUGucGACGAucUGGGCGa -3'
miRNA:   3'- -GUCGU---UGaUGCCGCu-CUGCU--ACUCGU- -5'
12334 3' -53.1 NC_003324.1 + 42690 0.66 0.823275
Target:  5'- cCGGCAACcGCuGGCGAggcaucaucccaucgGACGAUGcGGUAg -3'
miRNA:   3'- -GUCGUUGaUG-CCGCU---------------CUGCUAC-UCGU- -5'
12334 3' -53.1 NC_003324.1 + 4736 0.66 0.800284
Target:  5'- gCGGCuGCUACGGCGgaAGGcCGA--AGCAa -3'
miRNA:   3'- -GUCGuUGAUGCCGC--UCU-GCUacUCGU- -5'
12334 3' -53.1 NC_003324.1 + 14206 0.66 0.797333
Target:  5'- aCAGCAGCU-UGGCuuGGCGAcggaucaggcaaguUGGGCGa -3'
miRNA:   3'- -GUCGUUGAuGCCGcuCUGCU--------------ACUCGU- -5'
12334 3' -53.1 NC_003324.1 + 22093 0.67 0.790385
Target:  5'- gGGCAGgUucuCGGCGcgccAGACGAUcGAGCc -3'
miRNA:   3'- gUCGUUgAu--GCCGC----UCUGCUA-CUCGu -5'
12334 3' -53.1 NC_003324.1 + 54550 0.67 0.774196
Target:  5'- aAGCAAUgg-GGCGAGugGAagcccgucucugaaaUGGGCGc -3'
miRNA:   3'- gUCGUUGaugCCGCUCugCU---------------ACUCGU- -5'
12334 3' -53.1 NC_003324.1 + 32493 0.67 0.770085
Target:  5'- uCGGCGAUcACGGUGucGACGAUGucGCu -3'
miRNA:   3'- -GUCGUUGaUGCCGCu-CUGCUACu-CGu -5'
12334 3' -53.1 NC_003324.1 + 44582 0.67 0.742827
Target:  5'- gCAGCGACacgGCGGCGAGGaacugcccguugcaGAUGuGUg -3'
miRNA:   3'- -GUCGUUGa--UGCCGCUCUg-------------CUACuCGu -5'
12334 3' -53.1 NC_003324.1 + 14592 0.72 0.475519
Target:  5'- aAGCGGCcgGCGGCGcAGGCGGU-AGCGu -3'
miRNA:   3'- gUCGUUGa-UGCCGC-UCUGCUAcUCGU- -5'
12334 3' -53.1 NC_003324.1 + 45826 0.72 0.496377
Target:  5'- gAGgGGCUGCGGCGAGAacaGUGAGg- -3'
miRNA:   3'- gUCgUUGAUGCCGCUCUgc-UACUCgu -5'
12334 3' -53.1 NC_003324.1 + 45352 0.71 0.528403
Target:  5'- gGGCGACUugaagcagGCGGCGAGcaGCGA-GGGCc -3'
miRNA:   3'- gUCGUUGA--------UGCCGCUC--UGCUaCUCGu -5'
12334 3' -53.1 NC_003324.1 + 16520 0.71 0.554561
Target:  5'- gCAGCGgaucggccugugcguGCU-CGGCGAGAgGGUGAGgGg -3'
miRNA:   3'- -GUCGU---------------UGAuGCCGCUCUgCUACUCgU- -5'
12334 3' -53.1 NC_003324.1 + 50862 0.69 0.661659
Target:  5'- cCAGCGACagcAUGGCGAGGUGGUGAcCAu -3'
miRNA:   3'- -GUCGUUGa--UGCCGCUCUGCUACUcGU- -5'
12334 3' -53.1 NC_003324.1 + 49517 0.69 0.669478
Target:  5'- uGGC-ACUcucggccguaucgaGCGGCGAGGCGAcGuGCAu -3'
miRNA:   3'- gUCGuUGA--------------UGCCGCUCUGCUaCuCGU- -5'
12334 3' -53.1 NC_003324.1 + 16649 1.09 0.00174
Target:  5'- uCAGCAACUACGGCGAGACGAUGAGCAg -3'
miRNA:   3'- -GUCGUUGAUGCCGCUCUGCUACUCGU- -5'
12334 3' -53.1 NC_003324.1 + 24998 0.66 0.828841
Target:  5'- -uGCGACcggGCGGCGugcuGGCGAUG-GUg -3'
miRNA:   3'- guCGUUGa--UGCCGCu---CUGCUACuCGu -5'
12334 3' -53.1 NC_003324.1 + 53896 0.66 0.828841
Target:  5'- -cGCAGCc-CGGCGAGACcuuGGUGcAGCc -3'
miRNA:   3'- guCGUUGauGCCGCUCUG---CUAC-UCGu -5'
12334 3' -53.1 NC_003324.1 + 21369 0.66 0.819523
Target:  5'- aGGCGGCgaacGCGGcCGAGAUGAaagcGGCAg -3'
miRNA:   3'- gUCGUUGa---UGCC-GCUCUGCUac--UCGU- -5'
12334 3' -53.1 NC_003324.1 + 33058 0.66 0.819523
Target:  5'- uCGGCAuugGCgACGGCGAG-CaGAUGcAGCGc -3'
miRNA:   3'- -GUCGU---UGaUGCCGCUCuG-CUAC-UCGU- -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.