miRNA display CGI


Results 1 - 18 of 18 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
23121 3' -56.7 NC_005178.1 + 34236 0.66 0.609317
Target:  5'- gUCgCAGGaAUAGACG---UCGGUCGGg -3'
miRNA:   3'- -GGgGUCCcUGUCUGCuacAGCCAGCC- -5'
23121 3' -56.7 NC_005178.1 + 379 0.67 0.523297
Target:  5'- cCUCCAGGcGCAG-CGG-GUCGGacUCGGu -3'
miRNA:   3'- -GGGGUCCcUGUCuGCUaCAGCC--AGCC- -5'
23121 3' -56.7 NC_005178.1 + 17060 0.67 0.509714
Target:  5'- -aCCGGGGGCggcgaccuucagcuGGGCGGUGgCGG-CGGc -3'
miRNA:   3'- ggGGUCCCUG--------------UCUGCUACaGCCaGCC- -5'
23121 3' -56.7 NC_005178.1 + 2884 0.68 0.49218
Target:  5'- -gCCAGGGuucaggcuACGGGCGcgG-CGGUCGa -3'
miRNA:   3'- ggGGUCCC--------UGUCUGCuaCaGCCAGCc -5'
23121 3' -56.7 NC_005178.1 + 5528 0.68 0.481996
Target:  5'- -aCCAGGGuCAGGucguCGgcGUgGGUCGGc -3'
miRNA:   3'- ggGGUCCCuGUCU----GCuaCAgCCAGCC- -5'
23121 3' -56.7 NC_005178.1 + 32231 0.68 0.461942
Target:  5'- gCUCCAGGuuCAGGCGcUGgaGGUCGGc -3'
miRNA:   3'- -GGGGUCCcuGUCUGCuACagCCAGCC- -5'
23121 3' -56.7 NC_005178.1 + 14941 0.68 0.452082
Target:  5'- -aUCGGGaGACAGGCGuccUGgacgUGGUCGGg -3'
miRNA:   3'- ggGGUCC-CUGUCUGCu--ACa---GCCAGCC- -5'
23121 3' -56.7 NC_005178.1 + 26551 0.69 0.432712
Target:  5'- aCCUCcGGGGCGGAUuuGGUGUa-GUCGGa -3'
miRNA:   3'- -GGGGuCCCUGUCUG--CUACAgcCAGCC- -5'
23121 3' -56.7 NC_005178.1 + 32861 0.69 0.422267
Target:  5'- uCUCCAGGGcgauaucGCaaaGGGCGAUGUUGGcgaugUCGGc -3'
miRNA:   3'- -GGGGUCCC-------UG---UCUGCUACAGCC-----AGCC- -5'
23121 3' -56.7 NC_005178.1 + 15541 0.69 0.413835
Target:  5'- gUCCAGcaGGAacCAGGCGGUGUCGGacUCGa -3'
miRNA:   3'- gGGGUC--CCU--GUCUGCUACAGCC--AGCc -5'
23121 3' -56.7 NC_005178.1 + 30687 0.69 0.404588
Target:  5'- gCCCCAGGccGACAGAuCGAUugcgCGGUCc- -3'
miRNA:   3'- -GGGGUCC--CUGUCU-GCUAca--GCCAGcc -5'
23121 3' -56.7 NC_005178.1 + 34582 0.7 0.351937
Target:  5'- -aCCGGGGAgcuggcCGGGCGA-GUCGGUgagCGGg -3'
miRNA:   3'- ggGGUCCCU------GUCUGCUaCAGCCA---GCC- -5'
23121 3' -56.7 NC_005178.1 + 7073 0.71 0.327494
Target:  5'- gCCCGGcccuGGGCgAGGCGGUGaccUCGGUCGa -3'
miRNA:   3'- gGGGUC----CCUG-UCUGCUAC---AGCCAGCc -5'
23121 3' -56.7 NC_005178.1 + 26088 0.73 0.224282
Target:  5'- gCCCgAGGGGCGGACGcUGcCGcagcGUCGGc -3'
miRNA:   3'- -GGGgUCCCUGUCUGCuACaGC----CAGCC- -5'
23121 3' -56.7 NC_005178.1 + 28663 0.74 0.20402
Target:  5'- gCCCAGGGucuggauguacCGGGCGAUGgagcccagguuucgCGGUCGGu -3'
miRNA:   3'- gGGGUCCCu----------GUCUGCUACa-------------GCCAGCC- -5'
23121 3' -56.7 NC_005178.1 + 28149 0.75 0.18636
Target:  5'- gCCCAGGGGCuGACG--GUCGGcgccUCGGc -3'
miRNA:   3'- gGGGUCCCUGuCUGCuaCAGCC----AGCC- -5'
23121 3' -56.7 NC_005178.1 + 19564 0.77 0.123331
Target:  5'- aCCCuGGGcagccgcAUAGGUGAUGUCGGUCGGa -3'
miRNA:   3'- gGGGuCCC-------UGUCUGCUACAGCCAGCC- -5'
23121 3' -56.7 NC_005178.1 + 17943 0.99 0.003606
Target:  5'- gCCCCAGGGACAGACGAUGUC-GUCGGc -3'
miRNA:   3'- -GGGGUCCCUGUCUGCUACAGcCAGCC- -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.