miRNA display CGI


Results 1 - 20 of 27 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
29595 3' -53.6 NC_006151.1 + 97449 0.66 0.960641
Target:  5'- --cUGAGGGCgucgccGAGCUCGGGCa-- -3'
miRNA:   3'- caaGCUCCUGaaa---CUCGAGCUCGggu -5'
29595 3' -53.6 NC_006151.1 + 96628 0.66 0.958415
Target:  5'- --cCGAGGGCgcgcagcgccucGAGCUCGgcggcgagGGCCCGg -3'
miRNA:   3'- caaGCUCCUGaaa---------CUCGAGC--------UCGGGU- -5'
29595 3' -53.6 NC_006151.1 + 28229 0.66 0.956884
Target:  5'- -gUCGAGGGggccGGGCcgaCGGGCCCAu -3'
miRNA:   3'- caAGCUCCUgaaaCUCGa--GCUCGGGU- -5'
29595 3' -53.6 NC_006151.1 + 19718 0.66 0.95289
Target:  5'- --gCGAGGGCc--GAGC-CGAaGCCCGc -3'
miRNA:   3'- caaGCUCCUGaaaCUCGaGCU-CGGGU- -5'
29595 3' -53.6 NC_006151.1 + 27399 0.66 0.95289
Target:  5'- ---gGAGGGCac-GGGCUCGuaccagucGGCCCAg -3'
miRNA:   3'- caagCUCCUGaaaCUCGAGC--------UCGGGU- -5'
29595 3' -53.6 NC_006151.1 + 115067 0.66 0.948655
Target:  5'- ---gGGGGGCggcUGAGCUCG-GCCg- -3'
miRNA:   3'- caagCUCCUGaa-ACUCGAGCuCGGgu -5'
29595 3' -53.6 NC_006151.1 + 110657 0.66 0.944174
Target:  5'- ---gGGGGACUUgggGGGaUUgGGGCCCAa -3'
miRNA:   3'- caagCUCCUGAAa--CUC-GAgCUCGGGU- -5'
29595 3' -53.6 NC_006151.1 + 96813 0.66 0.944174
Target:  5'- --gCGcGGGCUUUuAGCggCGGGCCCGc -3'
miRNA:   3'- caaGCuCCUGAAAcUCGa-GCUCGGGU- -5'
29595 3' -53.6 NC_006151.1 + 49901 0.67 0.934466
Target:  5'- cGUcCGuGGAC---GAGCUCGGGCgCCGg -3'
miRNA:   3'- -CAaGCuCCUGaaaCUCGAGCUCG-GGU- -5'
29595 3' -53.6 NC_006151.1 + 33951 0.67 0.929235
Target:  5'- --cCGGGGGCUcgGGGCgggacgCGGcGCCCGc -3'
miRNA:   3'- caaGCUCCUGAaaCUCGa-----GCU-CGGGU- -5'
29595 3' -53.6 NC_006151.1 + 46722 0.67 0.923752
Target:  5'- -cUCGGGGGCcg-GGGC-CG-GCCCGg -3'
miRNA:   3'- caAGCUCCUGaaaCUCGaGCuCGGGU- -5'
29595 3' -53.6 NC_006151.1 + 39102 0.67 0.91203
Target:  5'- --aCGAGGAgCUcUGcGC-CGAGCCCGc -3'
miRNA:   3'- caaGCUCCU-GAaACuCGaGCUCGGGU- -5'
29595 3' -53.6 NC_006151.1 + 121417 0.68 0.899309
Target:  5'- cGggCGGGGACgucgcgGGGCUCGcGCCg- -3'
miRNA:   3'- -CaaGCUCCUGaaa---CUCGAGCuCGGgu -5'
29595 3' -53.6 NC_006151.1 + 13956 0.68 0.894624
Target:  5'- --cCGGGGACgcgccggccauggggGAGC-CGGGCCCGc -3'
miRNA:   3'- caaGCUCCUGaaa------------CUCGaGCUCGGGU- -5'
29595 3' -53.6 NC_006151.1 + 5960 0.68 0.892579
Target:  5'- --cCGAGGACgaggUGAccguGCUCGgAGCCUg -3'
miRNA:   3'- caaGCUCCUGaa--ACU----CGAGC-UCGGGu -5'
29595 3' -53.6 NC_006151.1 + 105275 0.68 0.892579
Target:  5'- ---gGAGGACUUUGGGCgcgCGcgcGGCCg- -3'
miRNA:   3'- caagCUCCUGAAACUCGa--GC---UCGGgu -5'
29595 3' -53.6 NC_006151.1 + 2398 0.68 0.878403
Target:  5'- -cUCGGGGcCgcgGAGCUCGgcgaGGCCCc -3'
miRNA:   3'- caAGCUCCuGaaaCUCGAGC----UCGGGu -5'
29595 3' -53.6 NC_006151.1 + 95933 0.69 0.870965
Target:  5'- --cCGAGGGCgugcggUUGaAGCUCugcagcgaGAGCCCGa -3'
miRNA:   3'- caaGCUCCUGa-----AAC-UCGAG--------CUCGGGU- -5'
29595 3' -53.6 NC_006151.1 + 36231 0.69 0.855416
Target:  5'- --aCGAGGAg---GAGgaCGAGCCCGg -3'
miRNA:   3'- caaGCUCCUgaaaCUCgaGCUCGGGU- -5'
29595 3' -53.6 NC_006151.1 + 12761 0.69 0.855416
Target:  5'- ---gGAGGGCU---GGCUCGAGgCCAg -3'
miRNA:   3'- caagCUCCUGAaacUCGAGCUCgGGU- -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.