miRNA display CGI


Results 1 - 20 of 37 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
27433 3' -58.5 NC_005869.1 + 6882 0.71 0.160873
Target:  5'- gCCGAGGUGCGGCgccugGGGCCggCuGGCGc -3'
miRNA:   3'- aGGUUCCGCGUCG-----UCCGGaaGcUCGU- -5'
27433 3' -58.5 NC_005869.1 + 7067 0.67 0.339979
Target:  5'- gUCCuGGGCGCAGUAgcgcaggguGGCCUggacgaugUCGuaAGCGu -3'
miRNA:   3'- -AGGuUCCGCGUCGU---------CCGGA--------AGC--UCGU- -5'
27433 3' -58.5 NC_005869.1 + 7440 0.75 0.090381
Target:  5'- gCCAGGaGCGuCGGCGGGCCga-GGGCGg -3'
miRNA:   3'- aGGUUC-CGC-GUCGUCCGGaagCUCGU- -5'
27433 3' -58.5 NC_005869.1 + 7732 0.69 0.22417
Target:  5'- gCCAgaGGGUGUcggugaGGCGGGCCUgcaGGGCGu -3'
miRNA:   3'- aGGU--UCCGCG------UCGUCCGGAag-CUCGU- -5'
27433 3' -58.5 NC_005869.1 + 7790 0.67 0.339979
Target:  5'- gCCGAuGGCGCGcuucuGCGGGCa---GAGCAu -3'
miRNA:   3'- aGGUU-CCGCGU-----CGUCCGgaagCUCGU- -5'
27433 3' -58.5 NC_005869.1 + 8220 0.76 0.073515
Target:  5'- --gGAGGCgggGCGGCGGGCCcUCGGGCGg -3'
miRNA:   3'- aggUUCCG---CGUCGUCCGGaAGCUCGU- -5'
27433 3' -58.5 NC_005869.1 + 8378 0.68 0.284592
Target:  5'- -gCGAGGCGCAGgAGGUagcagUGAGCc -3'
miRNA:   3'- agGUUCCGCGUCgUCCGgaa--GCUCGu -5'
27433 3' -58.5 NC_005869.1 + 8403 0.66 0.374971
Target:  5'- cCCAgAGGgGCGGCGGGCacUCGcGGUAg -3'
miRNA:   3'- aGGU-UCCgCGUCGUCCGgaAGC-UCGU- -5'
27433 3' -58.5 NC_005869.1 + 8665 0.74 0.107704
Target:  5'- uUCCAGGGCGC-GCAGGUUUcgguccUCGAGgCAc -3'
miRNA:   3'- -AGGUUCCGCGuCGUCCGGA------AGCUC-GU- -5'
27433 3' -58.5 NC_005869.1 + 9042 0.66 0.384092
Target:  5'- gUCCGAGGUGUgcauccAGCGGGCCagcugcUCGucGCu -3'
miRNA:   3'- -AGGUUCCGCG------UCGUCCGGa-----AGCu-CGu -5'
27433 3' -58.5 NC_005869.1 + 9922 0.71 0.175
Target:  5'- cCCGcaggGGGCGCAGCAGcGCCaggUCG-GCc -3'
miRNA:   3'- aGGU----UCCGCGUCGUC-CGGa--AGCuCGu -5'
27433 3' -58.5 NC_005869.1 + 10161 0.73 0.120937
Target:  5'- --aGAGGCGCAGCAGGUgCUgguagcccaCGAGCAg -3'
miRNA:   3'- aggUUCCGCGUCGUCCG-GAa--------GCUCGU- -5'
27433 3' -58.5 NC_005869.1 + 10728 0.7 0.185023
Target:  5'- ---cGGGCGCGGC-GGCCccCGAGCGg -3'
miRNA:   3'- agguUCCGCGUCGuCCGGaaGCUCGU- -5'
27433 3' -58.5 NC_005869.1 + 10923 1.09 0.000213
Target:  5'- cUCCAAGGCGCAGCAGGCCUUCGAGCAg -3'
miRNA:   3'- -AGGUUCCGCGUCGUCCGGAAGCUCGU- -5'
27433 3' -58.5 NC_005869.1 + 10962 0.7 0.185023
Target:  5'- cCCAcauGaGCGCGGCcgccuggcccAGGCCUaCGAGCAg -3'
miRNA:   3'- aGGUu--C-CGCGUCG----------UCCGGAaGCUCGU- -5'
27433 3' -58.5 NC_005869.1 + 12088 0.67 0.339979
Target:  5'- cCCAGGacGUGCGGCAGGUgaUCGcccAGCGc -3'
miRNA:   3'- aGGUUC--CGCGUCGUCCGgaAGC---UCGU- -5'
27433 3' -58.5 NC_005869.1 + 12361 0.66 0.35805
Target:  5'- cCCuguGGGgGCuGCAGGCCcccgcuggggagcgCGGGCAc -3'
miRNA:   3'- aGGu--UCCgCGuCGUCCGGaa------------GCUCGU- -5'
27433 3' -58.5 NC_005869.1 + 12696 0.67 0.323391
Target:  5'- aUCCugcgcuacGUGCAGCAGGCCgu-GAGCc -3'
miRNA:   3'- -AGGuuc-----CGCGUCGUCCGGaagCUCGu -5'
27433 3' -58.5 NC_005869.1 + 13305 0.7 0.212316
Target:  5'- cCCGgcAGGaGCAGCAGGCuCUUgaGGGCAa -3'
miRNA:   3'- aGGU--UCCgCGUCGUCCG-GAAg-CUCGU- -5'
27433 3' -58.5 NC_005869.1 + 14990 0.69 0.243001
Target:  5'- cCCGGGGUGCAGCGGGUaaccgucacCGAcGCGc -3'
miRNA:   3'- aGGUUCCGCGUCGUCCGgaa------GCU-CGU- -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.