miRNA display CGI


Results 1 - 20 of 20 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
31795 3' -58.9 NC_006938.1 + 30606 0.66 0.556424
Target:  5'- gCUGGGAGaCCGaGGAGGUCGucgggAGCa--- -3'
miRNA:   3'- -GACCCUC-GGCcUCUCCAGU-----UCGaggu -5'
31795 3' -58.9 NC_006938.1 + 57770 0.66 0.545951
Target:  5'- --uGGAGgUGGAGGGGaUCuccgaGAGCUCCGu -3'
miRNA:   3'- gacCCUCgGCCUCUCC-AG-----UUCGAGGU- -5'
31795 3' -58.9 NC_006938.1 + 48603 0.66 0.545951
Target:  5'- ----cGGCCGGAacguucGAGGUCucAGGCUCCAu -3'
miRNA:   3'- gacccUCGGCCU------CUCCAG--UUCGAGGU- -5'
31795 3' -58.9 NC_006938.1 + 1827 0.66 0.528298
Target:  5'- cCUGGGgccaguugccaccGGCCGGAGcuguccauggcGucgucgcagauguacGGUCGAGCUCCc -3'
miRNA:   3'- -GACCC-------------UCGGCCUC-----------U---------------CCAGUUCGAGGu -5'
31795 3' -58.9 NC_006938.1 + 5571 0.67 0.484671
Target:  5'- gUGGGAgGCCGaGAagGAGGUCGccGCUCUc -3'
miRNA:   3'- gACCCU-CGGC-CU--CUCCAGUu-CGAGGu -5'
31795 3' -58.9 NC_006938.1 + 2103 0.67 0.474769
Target:  5'- uUGuGGAGCCGGAcaGGGUCA--CUCCu -3'
miRNA:   3'- gAC-CCUCGGCCUc-UCCAGUucGAGGu -5'
31795 3' -58.9 NC_006938.1 + 575 0.67 0.474769
Target:  5'- gUGGGAgGCCGGuGccGagAGGCUCCGc -3'
miRNA:   3'- gACCCU-CGGCCuCucCagUUCGAGGU- -5'
31795 3' -58.9 NC_006938.1 + 11987 0.67 0.455277
Target:  5'- gUGGGAGCUGauccAGGGcGUCGAcgucGCUCCGa -3'
miRNA:   3'- gACCCUCGGCc---UCUC-CAGUU----CGAGGU- -5'
31795 3' -58.9 NC_006938.1 + 4831 0.67 0.455277
Target:  5'- cCUGGcaccGGCCGaggaguucggcGAGGuGGUCGAGCUCCu -3'
miRNA:   3'- -GACCc---UCGGC-----------CUCU-CCAGUUCGAGGu -5'
31795 3' -58.9 NC_006938.1 + 52975 0.68 0.445694
Target:  5'- gCUGaGGAuCCGGucgaacGAGGUCGAGC-CCGa -3'
miRNA:   3'- -GAC-CCUcGGCCu-----CUCCAGUUCGaGGU- -5'
31795 3' -58.9 NC_006938.1 + 15045 0.68 0.41764
Target:  5'- -cGGGAGCCGG-GAuGUUGAGCgCCu -3'
miRNA:   3'- gaCCCUCGGCCuCUcCAGUUCGaGGu -5'
31795 3' -58.9 NC_006938.1 + 29982 0.69 0.39069
Target:  5'- -cGGGAGgCGGAGGgugcuGGaUCuGGCUCCGc -3'
miRNA:   3'- gaCCCUCgGCCUCU-----CC-AGuUCGAGGU- -5'
31795 3' -58.9 NC_006938.1 + 34523 0.69 0.372512
Target:  5'- uUGGaGAGCCcaaGGAGGggcggcuGGUCuGGCUCCGg -3'
miRNA:   3'- gACC-CUCGG---CCUCU-------CCAGuUCGAGGU- -5'
31795 3' -58.9 NC_006938.1 + 35827 0.69 0.348373
Target:  5'- -cGGcGGCCGGAaGGGUCAGG-UCCAg -3'
miRNA:   3'- gaCCcUCGGCCUcUCCAGUUCgAGGU- -5'
31795 3' -58.9 NC_006938.1 + 32610 0.7 0.340312
Target:  5'- ---cGGGCCGGGGcacaacguGGUCAAGUUCCAc -3'
miRNA:   3'- gaccCUCGGCCUCu-------CCAGUUCGAGGU- -5'
31795 3' -58.9 NC_006938.1 + 13018 0.71 0.260622
Target:  5'- uCUGGG-GCCGGugguccaugagAGAGGUCGAGCa--- -3'
miRNA:   3'- -GACCCuCGGCC-----------UCUCCAGUUCGaggu -5'
31795 3' -58.9 NC_006938.1 + 21400 0.72 0.254186
Target:  5'- gUGGGAGCCGGGGAGuGgcccuUCA-GCUUCu -3'
miRNA:   3'- gACCCUCGGCCUCUC-C-----AGUuCGAGGu -5'
31795 3' -58.9 NC_006938.1 + 4164 0.72 0.235657
Target:  5'- gCUGGuaGAGCuuguCGGGGAGGUCGAGCgcgUCCu -3'
miRNA:   3'- -GACC--CUCG----GCCUCUCCAGUUCG---AGGu -5'
31795 3' -58.9 NC_006938.1 + 38157 0.73 0.207305
Target:  5'- -cGGGAGCCGGuGGcauGGUCcacuuGGCUCCc -3'
miRNA:   3'- gaCCCUCGGCCuCU---CCAGu----UCGAGGu -5'
31795 3' -58.9 NC_006938.1 + 7104 1.08 0.00061
Target:  5'- gCUGGGAGCCGGAGAGGUCAAGCUCCAc -3'
miRNA:   3'- -GACCCUCGGCCUCUCCAGUUCGAGGU- -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.