miRNA display CGI


Results 1 - 20 of 24 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
12399 3' -51.9 NC_003324.1 + 23415 0.66 0.895139
Target:  5'- cUCGUUGGcc--GCG-UCGgUGGCGCCc -3'
miRNA:   3'- -AGCAGCUucaaCGCuAGCaACCGCGG- -5'
12399 3' -51.9 NC_003324.1 + 4803 0.66 0.895139
Target:  5'- cCGUCcugcacagccauGAAGcaGCGAUcCGUuucagugacuaUGGCGCCg -3'
miRNA:   3'- aGCAG------------CUUCaaCGCUA-GCA-----------ACCGCGG- -5'
12399 3' -51.9 NC_003324.1 + 23935 0.66 0.895139
Target:  5'- gCGUCGAGGUUcacgcgGCGAagUCGUucaagacggUGGCGa- -3'
miRNA:   3'- aGCAGCUUCAA------CGCU--AGCA---------ACCGCgg -5'
12399 3' -51.9 NC_003324.1 + 32571 0.67 0.880318
Target:  5'- aUCGUCGAcaccGUGAUCGccgaGGCuGCCg -3'
miRNA:   3'- -AGCAGCUucaaCGCUAGCaa--CCG-CGG- -5'
12399 3' -51.9 NC_003324.1 + 23737 0.67 0.872514
Target:  5'- aCGUcaCGAAGagcUGCGA-CGUUG-CGCCg -3'
miRNA:   3'- aGCA--GCUUCa--ACGCUaGCAACcGCGG- -5'
12399 3' -51.9 NC_003324.1 + 45164 0.67 0.847609
Target:  5'- gCGuUCGAAGUaggacGCGAUU--UGGCGCUc -3'
miRNA:   3'- aGC-AGCUUCAa----CGCUAGcaACCGCGG- -5'
12399 3' -51.9 NC_003324.1 + 30463 0.67 0.847609
Target:  5'- ---cCGAAcGUUGCgGGUCGaaucGGCGCCg -3'
miRNA:   3'- agcaGCUU-CAACG-CUAGCaa--CCGCGG- -5'
12399 3' -51.9 NC_003324.1 + 44679 0.68 0.838836
Target:  5'- uUCGUCGAuc--GUGGU-GUUGGCaGCCu -3'
miRNA:   3'- -AGCAGCUucaaCGCUAgCAACCG-CGG- -5'
12399 3' -51.9 NC_003324.1 + 12891 0.68 0.82893
Target:  5'- aUCGUCGAuGGgcGCGGU-GUUGGUcgacagugguuccGCCa -3'
miRNA:   3'- -AGCAGCU-UCaaCGCUAgCAACCG-------------CGG- -5'
12399 3' -51.9 NC_003324.1 + 31857 0.68 0.820634
Target:  5'- aCGggccCGAAGagGcCGGcaggCGUUGGCGCCc -3'
miRNA:   3'- aGCa---GCUUCaaC-GCUa---GCAACCGCGG- -5'
12399 3' -51.9 NC_003324.1 + 27847 0.69 0.778876
Target:  5'- gUUGUCGAGGUagGCGGcgcgcgcuucguccUCGcUGGCGUa -3'
miRNA:   3'- -AGCAGCUUCAa-CGCU--------------AGCaACCGCGg -5'
12399 3' -51.9 NC_003324.1 + 29523 0.69 0.771783
Target:  5'- aUCGUCGAGGgggagaaugGCGAcCGguucccGGCGCg -3'
miRNA:   3'- -AGCAGCUUCaa-------CGCUaGCaa----CCGCGg -5'
12399 3' -51.9 NC_003324.1 + 8075 0.69 0.771783
Target:  5'- uUCGUCGAGGagGUGA-CcaUGGCuGCCa -3'
miRNA:   3'- -AGCAGCUUCaaCGCUaGcaACCG-CGG- -5'
12399 3' -51.9 NC_003324.1 + 14741 0.69 0.761527
Target:  5'- uUCGUCGA---UGCGAgguacuggcUGUUGGuCGCCu -3'
miRNA:   3'- -AGCAGCUucaACGCUa--------GCAACC-GCGG- -5'
12399 3' -51.9 NC_003324.1 + 5425 0.69 0.74062
Target:  5'- gCGUCGggGcgccguuggUGUcgaGAUCGUcGGCGUCg -3'
miRNA:   3'- aGCAGCuuCa--------ACG---CUAGCAaCCGCGG- -5'
12399 3' -51.9 NC_003324.1 + 43254 0.7 0.729994
Target:  5'- uUCGUCGAGGcugGC--UCGgauUGGCGCUc -3'
miRNA:   3'- -AGCAGCUUCaa-CGcuAGCa--ACCGCGG- -5'
12399 3' -51.9 NC_003324.1 + 13165 0.7 0.686608
Target:  5'- gCGUCGGcg--GCGGUCGgcGGCGgCg -3'
miRNA:   3'- aGCAGCUucaaCGCUAGCaaCCGCgG- -5'
12399 3' -51.9 NC_003324.1 + 39546 0.7 0.686608
Target:  5'- cUCGUCGAccacgGGgaGCGuccCGccUGGCGCCa -3'
miRNA:   3'- -AGCAGCU-----UCaaCGCua-GCa-ACCGCGG- -5'
12399 3' -51.9 NC_003324.1 + 20685 0.72 0.620146
Target:  5'- cCGUCGAAGUcacugGCGAc----GGCGCCa -3'
miRNA:   3'- aGCAGCUUCAa----CGCUagcaaCCGCGG- -5'
12399 3' -51.9 NC_003324.1 + 1658 0.72 0.586919
Target:  5'- cUUGUCGAGauugGUGAUCGcgggcUGGCGCCc -3'
miRNA:   3'- -AGCAGCUUcaa-CGCUAGCa----ACCGCGG- -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.