miRNA display CGI


Results 1 - 12 of 12 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
19442 5' -58.9 NC_004685.1 + 10422 0.66 0.574172
Target:  5'- -aAGGCUGGGCCGGAGGgcaucagcaaucggGAGcuGACAc -3'
miRNA:   3'- gcUCCGACUCGGUCUCCga------------CUC--CUGU- -5'
19442 5' -58.9 NC_004685.1 + 49030 0.66 0.541692
Target:  5'- -cAGGCUGccGCUAGAGGCggaagccgacGAGGAUg -3'
miRNA:   3'- gcUCCGACu-CGGUCUCCGa---------CUCCUGu -5'
19442 5' -58.9 NC_004685.1 + 58415 0.66 0.528249
Target:  5'- cCGAGGCUGuGCCGGccgggccgaccaAGGUccgcgugcucgaccUGuAGGACGa -3'
miRNA:   3'- -GCUCCGACuCGGUC------------UCCG--------------AC-UCCUGU- -5'
19442 5' -58.9 NC_004685.1 + 6686 0.68 0.461222
Target:  5'- cCGGGGCcaagGAGCCcGAGG-UGGGcGGCAc -3'
miRNA:   3'- -GCUCCGa---CUCGGuCUCCgACUC-CUGU- -5'
19442 5' -58.9 NC_004685.1 + 9385 0.68 0.442086
Target:  5'- gCGGcGCUGAGCCGGAuGGCgucgccGuGGGCGg -3'
miRNA:   3'- -GCUcCGACUCGGUCU-CCGa-----CuCCUGU- -5'
19442 5' -58.9 NC_004685.1 + 6950 0.68 0.432688
Target:  5'- --cGGCUGAGCCGG-GGCacccGGGGuCAc -3'
miRNA:   3'- gcuCCGACUCGGUCuCCGa---CUCCuGU- -5'
19442 5' -58.9 NC_004685.1 + 55102 0.68 0.423408
Target:  5'- cCGAGGgUGAcCCcGAGGCggugcccgagGAGGGCAa -3'
miRNA:   3'- -GCUCCgACUcGGuCUCCGa---------CUCCUGU- -5'
19442 5' -58.9 NC_004685.1 + 23338 0.68 0.414248
Target:  5'- uGAGGUccugGAGUCuGAGGCcGAGGAg- -3'
miRNA:   3'- gCUCCGa---CUCGGuCUCCGaCUCCUgu -5'
19442 5' -58.9 NC_004685.1 + 55737 0.69 0.369487
Target:  5'- gGAGGCUGAGCugaCAGAGGUgccgguguaugUGAucccggcugagcuGGACAc -3'
miRNA:   3'- gCUCCGACUCG---GUCUCCG-----------ACU-------------CCUGU- -5'
19442 5' -58.9 NC_004685.1 + 28049 0.71 0.285423
Target:  5'- gCGaAGGCgcGGGCCAaggcuGAGGCUGAGGuCGc -3'
miRNA:   3'- -GC-UCCGa-CUCGGU-----CUCCGACUCCuGU- -5'
19442 5' -58.9 NC_004685.1 + 21882 0.83 0.04067
Target:  5'- cCGAGGCUGAGCCcGAGGCUGAGc--- -3'
miRNA:   3'- -GCUCCGACUCGGuCUCCGACUCcugu -5'
19442 5' -58.9 NC_004685.1 + 21906 1.08 0.000564
Target:  5'- cCGAGGCUGAGCCAGAGGCUGAGGACAa -3'
miRNA:   3'- -GCUCCGACUCGGUCUCCGACUCCUGU- -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.