miRNA display CGI


Results 1 - 20 of 35 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
11974 3' -57.2 NC_003278.1 + 2326 0.67 0.433006
Target:  5'- uGCCccGGCCGUCgagcACCGGCAucGGaUCACc -3'
miRNA:   3'- -UGGu-CUGGCAG----UGGCCGUu-CC-AGUGc -5'
11974 3' -57.2 NC_003278.1 + 2953 0.76 0.104275
Target:  5'- cACCAGACCcgcgguGUCGCCcgucucGGCGGGGUCAUa -3'
miRNA:   3'- -UGGUCUGG------CAGUGG------CCGUUCCAGUGc -5'
11974 3' -57.2 NC_003278.1 + 5975 0.67 0.452793
Target:  5'- gACCAGcucgcgGCCGaggaUCACCaccaGGCccGGGUCACGg -3'
miRNA:   3'- -UGGUC------UGGC----AGUGG----CCGu-UCCAGUGC- -5'
11974 3' -57.2 NC_003278.1 + 7034 0.7 0.280007
Target:  5'- -gCAGAUCGgccccgaGCCGGCGGGG-CGCGg -3'
miRNA:   3'- ugGUCUGGCag-----UGGCCGUUCCaGUGC- -5'
11974 3' -57.2 NC_003278.1 + 7738 0.66 0.493779
Target:  5'- aACCAGAgCGaCACCGuCGAGG-CGCu -3'
miRNA:   3'- -UGGUCUgGCaGUGGCcGUUCCaGUGc -5'
11974 3' -57.2 NC_003278.1 + 7867 0.66 0.5149
Target:  5'- gGCCAGGCCGugguUCGCCucgaGGaccgccucGGUCACGc -3'
miRNA:   3'- -UGGUCUGGC----AGUGG----CCguu-----CCAGUGC- -5'
11974 3' -57.2 NC_003278.1 + 8043 0.67 0.423303
Target:  5'- cCCAGGCCGaggcccaugauggCGCCGGCcguggcgguggugguGAGGUCAg- -3'
miRNA:   3'- uGGUCUGGCa------------GUGGCCG---------------UUCCAGUgc -5'
11974 3' -57.2 NC_003278.1 + 8069 0.69 0.317756
Target:  5'- uGCC--GCCGUCaACCGGaAGGGUUACGc -3'
miRNA:   3'- -UGGucUGGCAG-UGGCCgUUCCAGUGC- -5'
11974 3' -57.2 NC_003278.1 + 8104 0.66 0.504291
Target:  5'- gGCCAG-CCaggCGCCGaGCAGGG-CACc -3'
miRNA:   3'- -UGGUCuGGca-GUGGC-CGUUCCaGUGc -5'
11974 3' -57.2 NC_003278.1 + 8889 0.68 0.404295
Target:  5'- -aUAGAUCGUCGCCaGCGgcAGGUCgagGCGa -3'
miRNA:   3'- ugGUCUGGCAGUGGcCGU--UCCAG---UGC- -5'
11974 3' -57.2 NC_003278.1 + 9529 0.67 0.452793
Target:  5'- cGCCAGGCCGgCACCaucacGGCccucGAGGcCGCc -3'
miRNA:   3'- -UGGUCUGGCaGUGG-----CCG----UUCCaGUGc -5'
11974 3' -57.2 NC_003278.1 + 11141 0.66 0.483367
Target:  5'- ------aCGUUGCCGGCGAGGUUGCa -3'
miRNA:   3'- uggucugGCAGUGGCCGUUCCAGUGc -5'
11974 3' -57.2 NC_003278.1 + 12206 1.09 0.000388
Target:  5'- aACCAGACCGUCACCGGCAAGGUCACGg -3'
miRNA:   3'- -UGGUCUGGCAGUGGCCGUUCCAGUGC- -5'
11974 3' -57.2 NC_003278.1 + 12270 0.68 0.404295
Target:  5'- cACCGuGACC-UUGCCGGUGAcGGUCugGu -3'
miRNA:   3'- -UGGU-CUGGcAGUGGCCGUU-CCAGugC- -5'
11974 3' -57.2 NC_003278.1 + 12562 0.66 0.5149
Target:  5'- gGCCAGaACC-UgGCCGGCcAGGugcUCAUGg -3'
miRNA:   3'- -UGGUC-UGGcAgUGGCCGuUCC---AGUGC- -5'
11974 3' -57.2 NC_003278.1 + 14104 0.7 0.294663
Target:  5'- cGCCAGGCCGUgGCgGGCcAGGaugUC-CGg -3'
miRNA:   3'- -UGGUCUGGCAgUGgCCGuUCC---AGuGC- -5'
11974 3' -57.2 NC_003278.1 + 14280 0.68 0.394995
Target:  5'- cGCCGGGCgCGcCGCCGGC---GUCACc -3'
miRNA:   3'- -UGGUCUG-GCaGUGGCCGuucCAGUGc -5'
11974 3' -57.2 NC_003278.1 + 14683 0.73 0.182993
Target:  5'- gACCAGGCCGUUGCCGGCcAGcaccUUGCGu -3'
miRNA:   3'- -UGGUCUGGCAGUGGCCGuUCc---AGUGC- -5'
11974 3' -57.2 NC_003278.1 + 16537 0.7 0.280007
Target:  5'- gGCCAgggacuguuGAUCGUCGCUGGCGAggauggacagccGGUCGCc -3'
miRNA:   3'- -UGGU---------CUGGCAGUGGCCGUU------------CCAGUGc -5'
11974 3' -57.2 NC_003278.1 + 16708 0.68 0.385834
Target:  5'- gACCAGGgCGUCggugucgucgaGCUGGC--GGUCGCGc -3'
miRNA:   3'- -UGGUCUgGCAG-----------UGGCCGuuCCAGUGC- -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.