miRNA display CGI


Results 1 - 17 of 17 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
1060 3' -51.3 NC_000929.1 + 10593 0.66 0.839604
Target:  5'- -----aUGCCU--UACCGCGAUAuuGCCg -3'
miRNA:   3'- agucuaGCGGAaaAUGGCGCUGU--CGG- -5'
1060 3' -51.3 NC_000929.1 + 22354 0.66 0.820582
Target:  5'- cCGGGUUGCCaUUUUucCCGgaGGCGGCUu -3'
miRNA:   3'- aGUCUAGCGG-AAAAu-GGCg-CUGUCGG- -5'
1060 3' -51.3 NC_000929.1 + 30108 0.67 0.790424
Target:  5'- gCGGcuGUCGCCUgUUUGCgGCG-CAcGCCc -3'
miRNA:   3'- aGUC--UAGCGGA-AAAUGgCGCuGU-CGG- -5'
1060 3' -51.3 NC_000929.1 + 4169 0.67 0.790424
Target:  5'- uUCAcuUCGCCUUgcaGCCaUGACGGCUc -3'
miRNA:   3'- -AGUcuAGCGGAAaa-UGGcGCUGUCGG- -5'
1060 3' -51.3 NC_000929.1 + 30041 0.67 0.790424
Target:  5'- -uGGGgcgugCGCCgcaaACagGCGACAGCCg -3'
miRNA:   3'- agUCUa----GCGGaaaaUGg-CGCUGUCGG- -5'
1060 3' -51.3 NC_000929.1 + 27976 0.68 0.702886
Target:  5'- aUCAGGUCaGCCgUUUUGucacguCCgGCGACAGUg -3'
miRNA:   3'- -AGUCUAG-CGG-AAAAU------GG-CGCUGUCGg -5'
1060 3' -51.3 NC_000929.1 + 16670 0.68 0.702886
Target:  5'- gCAGAcagCGCCcgga--CGCGACAGCg -3'
miRNA:   3'- aGUCUa--GCGGaaaaugGCGCUGUCGg -5'
1060 3' -51.3 NC_000929.1 + 22447 0.68 0.702886
Target:  5'- gCuGAUgGCU--UUGCCGUGACAGUg -3'
miRNA:   3'- aGuCUAgCGGaaAAUGGCGCUGUCGg -5'
1060 3' -51.3 NC_000929.1 + 10871 0.68 0.691457
Target:  5'- cCAGAUgGCCcgcugggugUUUGCCGCa--GGCCa -3'
miRNA:   3'- aGUCUAgCGGa--------AAAUGGCGcugUCGG- -5'
1060 3' -51.3 NC_000929.1 + 16188 0.69 0.66842
Target:  5'- cCAGGUgauguuguaGCCUUUgGCgcggaaauaCGCGACAGCCu -3'
miRNA:   3'- aGUCUAg--------CGGAAAaUG---------GCGCUGUCGG- -5'
1060 3' -51.3 NC_000929.1 + 17303 0.69 0.64523
Target:  5'- aCAG-UCGCUUgaaGCCGCGAUuGCUg -3'
miRNA:   3'- aGUCuAGCGGAaaaUGGCGCUGuCGG- -5'
1060 3' -51.3 NC_000929.1 + 10987 0.7 0.587224
Target:  5'- cCAGAUUGCCaUUUccacuUCGCGACGGUUc -3'
miRNA:   3'- aGUCUAGCGGaAAAu----GGCGCUGUCGG- -5'
1060 3' -51.3 NC_000929.1 + 10730 0.7 0.575706
Target:  5'- --cGAUCGUCUUgucagggUGCCGCuGAC-GCCa -3'
miRNA:   3'- aguCUAGCGGAAa------AUGGCG-CUGuCGG- -5'
1060 3' -51.3 NC_000929.1 + 22390 0.71 0.508
Target:  5'- gCAGAUCGCCcaUUcCCGCGAUAcuugcGCUg -3'
miRNA:   3'- aGUCUAGCGGaaAAuGGCGCUGU-----CGG- -5'
1060 3' -51.3 NC_000929.1 + 29528 0.72 0.453224
Target:  5'- uUCAGAugaUCGCCguggaugguggggUgacagUUACCGCGACcGCCc -3'
miRNA:   3'- -AGUCU---AGCGG-------------Aa----AAUGGCGCUGuCGG- -5'
1060 3' -51.3 NC_000929.1 + 31216 0.81 0.14841
Target:  5'- cUCAGAUUGCCggucauacgcaUUUUAuUCGCGGCAGCCc -3'
miRNA:   3'- -AGUCUAGCGG-----------AAAAU-GGCGCUGUCGG- -5'
1060 3' -51.3 NC_000929.1 + 19854 1.14 0.000701
Target:  5'- gUCAGAUCGCCUUUUACCGCGACAGCCa -3'
miRNA:   3'- -AGUCUAGCGGAAAAUGGCGCUGUCGG- -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.