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
12801 3' -59.4 NC_003387.1 + 6383 0.66 0.473203
Target:  5'- gCGGgcGACGCcuUGCGUGggCGGCCCc -3'
miRNA:   3'- aGCCa-CUGCGacACGCGCa-GUCGGGu -5'
12801 3' -59.4 NC_003387.1 + 38426 0.66 0.453639
Target:  5'- gCGGcUGGCGCUG-GUGCccaagaaGGCCCAc -3'
miRNA:   3'- aGCC-ACUGCGACaCGCGcag----UCGGGU- -5'
12801 3' -59.4 NC_003387.1 + 11394 0.67 0.444024
Target:  5'- aUCGGcGccACGCUG-GcCGCGaUCGGCCCc -3'
miRNA:   3'- -AGCCaC--UGCGACaC-GCGC-AGUCGGGu -5'
12801 3' -59.4 NC_003387.1 + 4194 0.67 0.434523
Target:  5'- gCGGUGcuuCgGCcaccGCGUGUCGGCCCAg -3'
miRNA:   3'- aGCCACu--G-CGaca-CGCGCAGUCGGGU- -5'
12801 3' -59.4 NC_003387.1 + 17333 0.67 0.425142
Target:  5'- gCGGUGGCGCUucugcGUGcCGCaagGUCGGCaaaCAa -3'
miRNA:   3'- aGCCACUGCGA-----CAC-GCG---CAGUCGg--GU- -5'
12801 3' -59.4 NC_003387.1 + 29818 0.67 0.425142
Target:  5'- uUCGGUcGCGUUGgccGuCGCGUCGGUCUu -3'
miRNA:   3'- -AGCCAcUGCGACa--C-GCGCAGUCGGGu -5'
12801 3' -59.4 NC_003387.1 + 49677 0.67 0.406747
Target:  5'- gCGGUcGAgcagUGCUGaGCGUG-CAGCCCGg -3'
miRNA:   3'- aGCCA-CU----GCGACaCGCGCaGUCGGGU- -5'
12801 3' -59.4 NC_003387.1 + 20533 0.67 0.397739
Target:  5'- gUCGGUGACGac--GCGCagcucggcgGUCAGCUCGu -3'
miRNA:   3'- -AGCCACUGCgacaCGCG---------CAGUCGGGU- -5'
12801 3' -59.4 NC_003387.1 + 12252 0.68 0.380111
Target:  5'- cUCGGcuugauguacuUGGCGCUGUacagcuucgGCGCuGUCAGgCCGg -3'
miRNA:   3'- -AGCC-----------ACUGCGACA---------CGCG-CAGUCgGGU- -5'
12801 3' -59.4 NC_003387.1 + 19381 0.68 0.371496
Target:  5'- aCGGUGAcgguaaagcaCGUUGUGCaGCGUCgugcgGGCCUu -3'
miRNA:   3'- aGCCACU----------GCGACACG-CGCAG-----UCGGGu -5'
12801 3' -59.4 NC_003387.1 + 17549 0.68 0.354668
Target:  5'- cCGGUcGuacCGUUc-GCGCGUCAGCCCGc -3'
miRNA:   3'- aGCCA-Cu--GCGAcaCGCGCAGUCGGGU- -5'
12801 3' -59.4 NC_003387.1 + 19148 0.69 0.338386
Target:  5'- gCGGUggcucgucGACGCUGUcgaGgGCG-CGGCCCGc -3'
miRNA:   3'- aGCCA--------CUGCGACA---CgCGCaGUCGGGU- -5'
12801 3' -59.4 NC_003387.1 + 38060 0.69 0.335991
Target:  5'- gCGGUGgcugagcgagcgccGCGUcacUGUGCGCGgCGGCCUg -3'
miRNA:   3'- aGCCAC--------------UGCG---ACACGCGCaGUCGGGu -5'
12801 3' -59.4 NC_003387.1 + 20596 0.69 0.330451
Target:  5'- cUCGauGUGGCGCaUGaguUGCauuGCGUCAGCCCc -3'
miRNA:   3'- -AGC--CACUGCG-AC---ACG---CGCAGUCGGGu -5'
12801 3' -59.4 NC_003387.1 + 20742 0.69 0.320341
Target:  5'- cCGGUaccuaccugugcucGAUGCgccugcaagGCGCGUCGGCCCu -3'
miRNA:   3'- aGCCA--------------CUGCGaca------CGCGCAGUCGGGu -5'
12801 3' -59.4 NC_003387.1 + 30971 0.7 0.292845
Target:  5'- gUCGGUGGCGCUGacgccgaGCGCcUCGGCg-- -3'
miRNA:   3'- -AGCCACUGCGACa------CGCGcAGUCGggu -5'
12801 3' -59.4 NC_003387.1 + 4583 0.7 0.285737
Target:  5'- cUCGGUGgcGCGCUGcGCGCGggUCuGCCa- -3'
miRNA:   3'- -AGCCAC--UGCGACaCGCGC--AGuCGGgu -5'
12801 3' -59.4 NC_003387.1 + 13514 0.71 0.239766
Target:  5'- cCGGUGGaguCGCUGacaGCGUCGGCCUg -3'
miRNA:   3'- aGCCACU---GCGACacgCGCAGUCGGGu -5'
12801 3' -59.4 NC_003387.1 + 3609 0.72 0.205429
Target:  5'- -gGGUGACaGCggGUGCGCGUCGagguGCUCGa -3'
miRNA:   3'- agCCACUG-CGa-CACGCGCAGU----CGGGU- -5'
12801 3' -59.4 NC_003387.1 + 44412 0.73 0.166333
Target:  5'- gCGGcUGACGCUGUGCucGCGaugCuGCCCGc -3'
miRNA:   3'- aGCC-ACUGCGACACG--CGCa--GuCGGGU- -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.