miRNA display CGI


Results 21 - 39 of 39 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
12347 5' -57.6 NC_003324.1 + 13163 0.68 0.406436
Target:  5'- gUCGGCGGCGguCGGC-GGCGGCgGu-- -3'
miRNA:   3'- gAGCCGUUGC--GCCGuCCGUCGgUuuu -5'
12347 5' -57.6 NC_003324.1 + 5497 0.69 0.370335
Target:  5'- aCUCGGCGcCGCagguGCGGGCgccaucuuccgAGCCGAAAu -3'
miRNA:   3'- -GAGCCGUuGCGc---CGUCCG-----------UCGGUUUU- -5'
12347 5' -57.6 NC_003324.1 + 44712 0.69 0.370335
Target:  5'- -cCGGCAuCGCaugGGCAGuCAGCCAAGg -3'
miRNA:   3'- gaGCCGUuGCG---CCGUCcGUCGGUUUu -5'
12347 5' -57.6 NC_003324.1 + 53220 0.7 0.328385
Target:  5'- cCUCGGaUGAUGCGGCccuuacggucGGGgAGCCAGAc -3'
miRNA:   3'- -GAGCC-GUUGCGCCG----------UCCgUCGGUUUu -5'
12347 5' -57.6 NC_003324.1 + 44091 0.75 0.153475
Target:  5'- gCUCGGCAugauCcCGGC-GGCAGCCGAGGa -3'
miRNA:   3'- -GAGCCGUu---GcGCCGuCCGUCGGUUUU- -5'
12347 5' -57.6 NC_003324.1 + 21375 0.76 0.133579
Target:  5'- -cCGGCGAgGCGGCGaacGCGGCCGAGAu -3'
miRNA:   3'- gaGCCGUUgCGCCGUc--CGUCGGUUUU- -5'
12347 5' -57.6 NC_003324.1 + 42380 0.76 0.126306
Target:  5'- -cCGGC-ACGUGGCAGGCGGCgCAc-- -3'
miRNA:   3'- gaGCCGuUGCGCCGUCCGUCG-GUuuu -5'
12347 5' -57.6 NC_003324.1 + 26926 0.67 0.451565
Target:  5'- --gGGCAugGCGGCgaucgacgAGGCAcucagcggagcggcGCCAAAGc -3'
miRNA:   3'- gagCCGUugCGCCG--------UCCGU--------------CGGUUUU- -5'
12347 5' -57.6 NC_003324.1 + 43645 0.67 0.474626
Target:  5'- aUCGGCugacguuGCGCGGCGuguGGCugauGCUGGAAg -3'
miRNA:   3'- gAGCCGu------UGCGCCGU---CCGu---CGGUUUU- -5'
12347 5' -57.6 NC_003324.1 + 145 0.67 0.484835
Target:  5'- -cCGGCGcauaagagcgugGCuGCGGCAGGCAGaCGGGu -3'
miRNA:   3'- gaGCCGU------------UG-CGCCGUCCGUCgGUUUu -5'
12347 5' -57.6 NC_003324.1 + 36875 0.66 0.558884
Target:  5'- -aCGGCGACGaGGCAauGGaugAGCCGGAGc -3'
miRNA:   3'- gaGCCGUUGCgCCGU--CCg--UCGGUUUU- -5'
12347 5' -57.6 NC_003324.1 + 32536 0.66 0.558884
Target:  5'- --aGGCGACGagGGCAuGGCuGCCGu-- -3'
miRNA:   3'- gagCCGUUGCg-CCGU-CCGuCGGUuuu -5'
12347 5' -57.6 NC_003324.1 + 3511 0.66 0.557799
Target:  5'- -aCGGUGcuuucccACGCGGaAGuGCAGCCAAAu -3'
miRNA:   3'- gaGCCGU-------UGCGCCgUC-CGUCGGUUUu -5'
12347 5' -57.6 NC_003324.1 + 6099 0.66 0.548072
Target:  5'- gUCGGCAGgaGCGGacuGGGCGGCa---- -3'
miRNA:   3'- gAGCCGUUg-CGCCg--UCCGUCGguuuu -5'
12347 5' -57.6 NC_003324.1 + 44917 0.66 0.537326
Target:  5'- -aCGGCA--GCaGCGGGCAcGCCAAu- -3'
miRNA:   3'- gaGCCGUugCGcCGUCCGU-CGGUUuu -5'
12347 5' -57.6 NC_003324.1 + 43324 0.66 0.526655
Target:  5'- --aGGCGACcCuGCAGGCGGCCc--- -3'
miRNA:   3'- gagCCGUUGcGcCGUCCGUCGGuuuu -5'
12347 5' -57.6 NC_003324.1 + 31639 0.67 0.492044
Target:  5'- cCUUGGCAuaucgagaccgcggGCGCGcGU-GGCGGCCAu-- -3'
miRNA:   3'- -GAGCCGU--------------UGCGC-CGuCCGUCGGUuuu -5'
12347 5' -57.6 NC_003324.1 + 16996 0.67 0.484835
Target:  5'- aUCGGUGACGCuGGCAG-CcGCCAc-- -3'
miRNA:   3'- gAGCCGUUGCG-CCGUCcGuCGGUuuu -5'
12347 5' -57.6 NC_003324.1 + 22686 1.06 0.000771
Target:  5'- gCUCGGCAACGCGGCAGGCAGCCAAAAg -3'
miRNA:   3'- -GAGCCGUUGCGCCGUCCGUCGGUUUU- -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.