miRNA display CGI


Results 1 - 20 of 23 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
18371 3' -52.3 NC_004681.1 + 33757 0.66 0.919037
Target:  5'- gGAGGUUCGCcACCUgcuccgugagGAAGguGAc-- -3'
miRNA:   3'- gCUCCAGGCGuUGGA----------CUUCguCUaag -5'
18371 3' -52.3 NC_004681.1 + 12095 0.66 0.917189
Target:  5'- cCGAGGUCCGCccgcgcgucucgcuGACCaaggucgGcAAGCAGuccUUCa -3'
miRNA:   3'- -GCUCCAGGCG--------------UUGGa------C-UUCGUCu--AAG- -5'
18371 3' -52.3 NC_004681.1 + 60599 0.66 0.91278
Target:  5'- aCGAGGccgCCGCugcggcACUUGAcgAGCAGAg-- -3'
miRNA:   3'- -GCUCCa--GGCGu-----UGGACU--UCGUCUaag -5'
18371 3' -52.3 NC_004681.1 + 29232 0.66 0.906248
Target:  5'- uGAGGU-CGCcacGCCUGAcGCGGAa-- -3'
miRNA:   3'- gCUCCAgGCGu--UGGACUuCGUCUaag -5'
18371 3' -52.3 NC_004681.1 + 57005 0.66 0.906248
Target:  5'- uCGGGGUCgGCAccACC-GAAGCuGAc-- -3'
miRNA:   3'- -GCUCCAGgCGU--UGGaCUUCGuCUaag -5'
18371 3' -52.3 NC_004681.1 + 59572 0.66 0.90558
Target:  5'- aGAGGacuaCCGCAuagucgACCUGAucacucaGGCGGAUg- -3'
miRNA:   3'- gCUCCa---GGCGU------UGGACU-------UCGUCUAag -5'
18371 3' -52.3 NC_004681.1 + 11366 0.66 0.902197
Target:  5'- uGAGGcUgGCGACCUGGcugacgaaguccacgAGCGGAUg- -3'
miRNA:   3'- gCUCCaGgCGUUGGACU---------------UCGUCUAag -5'
18371 3' -52.3 NC_004681.1 + 29754 0.66 0.892364
Target:  5'- uCGAGcGcuUCCGCGACCUGcuGcCAGGUg- -3'
miRNA:   3'- -GCUC-C--AGGCGUUGGACuuC-GUCUAag -5'
18371 3' -52.3 NC_004681.1 + 47725 0.67 0.877416
Target:  5'- aGAGGcuUCCGCAACUgcaucGCAGGUcgUCg -3'
miRNA:   3'- gCUCC--AGGCGUUGGacuu-CGUCUA--AG- -5'
18371 3' -52.3 NC_004681.1 + 17787 0.67 0.869556
Target:  5'- gGAGGuUCCGCAGCCcac-GCAGGc-- -3'
miRNA:   3'- gCUCC-AGGCGUUGGacuuCGUCUaag -5'
18371 3' -52.3 NC_004681.1 + 64936 0.67 0.861447
Target:  5'- aCGAGGUggcgaCGC-GCCUGGAGCuGGAcgUCu -3'
miRNA:   3'- -GCUCCAg----GCGuUGGACUUCG-UCUa-AG- -5'
18371 3' -52.3 NC_004681.1 + 61690 0.67 0.853097
Target:  5'- cCGAGGUCUcCAagauggaaacccGCCUGAAGCuGGAgUCc -3'
miRNA:   3'- -GCUCCAGGcGU------------UGGACUUCG-UCUaAG- -5'
18371 3' -52.3 NC_004681.1 + 3940 0.68 0.817447
Target:  5'- cCGAGGgcUUCGCuGGCCUGAAGCAc---- -3'
miRNA:   3'- -GCUCC--AGGCG-UUGGACUUCGUcuaag -5'
18371 3' -52.3 NC_004681.1 + 14995 0.68 0.808019
Target:  5'- gCGAGGcgacgUCgGCGACCUgcGAGGCGGGg-- -3'
miRNA:   3'- -GCUCC-----AGgCGUUGGA--CUUCGUCUaag -5'
18371 3' -52.3 NC_004681.1 + 24740 0.69 0.798405
Target:  5'- uCGGGGUCCGCgGugUUGucGCGGGa-- -3'
miRNA:   3'- -GCUCCAGGCG-UugGACuuCGUCUaag -5'
18371 3' -52.3 NC_004681.1 + 3410 0.69 0.798405
Target:  5'- uCGGGGUCCGCAguccuuACCguucAGGCGGGcgCg -3'
miRNA:   3'- -GCUCCAGGCGU------UGGac--UUCGUCUaaG- -5'
18371 3' -52.3 NC_004681.1 + 10478 0.69 0.788615
Target:  5'- gCGAGGUgCCaGCGACaCUgccGAAGCGGcGUUCg -3'
miRNA:   3'- -GCUCCA-GG-CGUUG-GA---CUUCGUC-UAAG- -5'
18371 3' -52.3 NC_004681.1 + 19115 0.69 0.782661
Target:  5'- gCGAGGUUCGCAgcuggguggacGCCUGGacccccaagaagcugGGCAaGUUCu -3'
miRNA:   3'- -GCUCCAGGCGU-----------UGGACU---------------UCGUcUAAG- -5'
18371 3' -52.3 NC_004681.1 + 8897 0.69 0.778661
Target:  5'- aGAGGUCCaGCu-CCUGGcuggcGGCGGGUa- -3'
miRNA:   3'- gCUCCAGG-CGuuGGACU-----UCGUCUAag -5'
18371 3' -52.3 NC_004681.1 + 44232 0.71 0.660492
Target:  5'- uGAGGgccaggcCCGCGGCCucgggggUGAGGCAGGUg- -3'
miRNA:   3'- gCUCCa------GGCGUUGG-------ACUUCGUCUAag -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.