miRNA display CGI


Results 1 - 16 of 16 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
22326 3' -59.4 NC_005045.1 + 235 0.66 0.392099
Target:  5'- -cGcAGGGCGCUGGGUAUgaG-CCGAu -3'
miRNA:   3'- uuCuUCCCGCGGCUCGUGgaCuGGCU- -5'
22326 3' -59.4 NC_005045.1 + 42298 0.66 0.392099
Target:  5'- -cGcAGGGCGCUGGGUAUgaG-CCGAu -3'
miRNA:   3'- uuCuUCCCGCGGCUCGUGgaCuGGCU- -5'
22326 3' -59.4 NC_005045.1 + 30963 0.66 0.383086
Target:  5'- -cGAugcGGGGCGCCGAGUACgguGCCa- -3'
miRNA:   3'- uuCU---UCCCGCGGCUCGUGgacUGGcu -5'
22326 3' -59.4 NC_005045.1 + 9471 0.66 0.383086
Target:  5'- --cGAGGGCGUC--GC-CCUGGCCGGu -3'
miRNA:   3'- uucUUCCCGCGGcuCGuGGACUGGCU- -5'
22326 3' -59.4 NC_005045.1 + 40843 0.66 0.374212
Target:  5'- --uGAGGGCuGCCaAGC-CCUGGCCa- -3'
miRNA:   3'- uucUUCCCG-CGGcUCGuGGACUGGcu -5'
22326 3' -59.4 NC_005045.1 + 24025 0.66 0.373332
Target:  5'- cAGGGcaGGUGCCGcAGCACCcagggguUGGCCGGc -3'
miRNA:   3'- -UUCUucCCGCGGC-UCGUGG-------ACUGGCU- -5'
22326 3' -59.4 NC_005045.1 + 33437 0.67 0.356886
Target:  5'- cAGGA-GGCGCCGuGCGCCcucuccgGGCUGGg -3'
miRNA:   3'- uUCUUcCCGCGGCuCGUGGa------CUGGCU- -5'
22326 3' -59.4 NC_005045.1 + 30242 0.67 0.348437
Target:  5'- cGAGcAGGGCGCCGuG-GCCUGGgCGc -3'
miRNA:   3'- -UUCuUCCCGCGGCuCgUGGACUgGCu -5'
22326 3' -59.4 NC_005045.1 + 23280 0.67 0.323954
Target:  5'- cAGGuGGGuGCGCCGcAGCAaCUGGCCa- -3'
miRNA:   3'- -UUCuUCC-CGCGGC-UCGUgGACUGGcu -5'
22326 3' -59.4 NC_005045.1 + 28963 0.67 0.323954
Target:  5'- ------cGCGCCGAGCACuCUGGCCc- -3'
miRNA:   3'- uucuuccCGCGGCUCGUG-GACUGGcu -5'
22326 3' -59.4 NC_005045.1 + 35975 0.68 0.316083
Target:  5'- ----uGGGCuucGCCGAgauucGCACCgUGACCGAg -3'
miRNA:   3'- uucuuCCCG---CGGCU-----CGUGG-ACUGGCU- -5'
22326 3' -59.4 NC_005045.1 + 22218 0.68 0.303791
Target:  5'- cAAGAAGGGCacggcgauggaguacGCCGAGCuguACCacgaGAUCGAc -3'
miRNA:   3'- -UUCUUCCCG---------------CGGCUCG---UGGa---CUGGCU- -5'
22326 3' -59.4 NC_005045.1 + 33372 0.69 0.258307
Target:  5'- gGAG-AGGGCGCaCG-GCGCCUccugGGCCGu -3'
miRNA:   3'- -UUCuUCCCGCG-GCuCGUGGA----CUGGCu -5'
22326 3' -59.4 NC_005045.1 + 16628 0.69 0.238975
Target:  5'- cAAGAAGGGCGCgcuGCACUggcugGGCCGc -3'
miRNA:   3'- -UUCUUCCCGCGgcuCGUGGa----CUGGCu -5'
22326 3' -59.4 NC_005045.1 + 12465 0.71 0.176787
Target:  5'- gGAGAaacAGGGCuucgaggcggccaaGCUGuugauGCGCCUGGCCGAg -3'
miRNA:   3'- -UUCU---UCCCG--------------CGGCu----CGUGGACUGGCU- -5'
22326 3' -59.4 NC_005045.1 + 16508 1.06 0.000382
Target:  5'- cAAGAAGGGCGCCGAGCACCUGACCGAg -3'
miRNA:   3'- -UUCUUCCCGCGGCUCGUGGACUGGCU- -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.