miRNA display CGI


Results 1 - 20 of 22 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
18854 5' -57.1 NC_004683.1 + 56758 0.66 0.678878
Target:  5'- gCUcGGAgUGGgaUCCGUGACCuCCGGGg -3'
miRNA:   3'- gGAaCCU-GCCg-AGGUACUGG-GGCUCg -5'
18854 5' -57.1 NC_004683.1 + 13009 0.66 0.668212
Target:  5'- uCCUgccGGGC-GC-CgGUGGCCCCG-GCg -3'
miRNA:   3'- -GGAa--CCUGcCGaGgUACUGGGGCuCG- -5'
18854 5' -57.1 NC_004683.1 + 37642 0.66 0.657513
Target:  5'- ---gGGccccACGGUUCCGUG-CCCgCGGGUg -3'
miRNA:   3'- ggaaCC----UGCCGAGGUACuGGG-GCUCG- -5'
18854 5' -57.1 NC_004683.1 + 32275 0.66 0.636057
Target:  5'- ---cGcGGCGGCgcgcggCCAUGGCCUCGAu- -3'
miRNA:   3'- ggaaC-CUGCCGa-----GGUACUGGGGCUcg -5'
18854 5' -57.1 NC_004683.1 + 39621 0.66 0.636057
Target:  5'- uCCggGGugGGCgccgCCgggGUGGCgaCCCGAGg -3'
miRNA:   3'- -GGaaCCugCCGa---GG---UACUG--GGGCUCg -5'
18854 5' -57.1 NC_004683.1 + 48804 0.67 0.614588
Target:  5'- gCUUGGccGCGGcCUUCGcGGCCucggcgCCGAGCg -3'
miRNA:   3'- gGAACC--UGCC-GAGGUaCUGG------GGCUCG- -5'
18854 5' -57.1 NC_004683.1 + 47579 0.67 0.603871
Target:  5'- cCCcUGcGACGGCUgCGUGGCggcgUUCGGGCc -3'
miRNA:   3'- -GGaAC-CUGCCGAgGUACUG----GGGCUCG- -5'
18854 5' -57.1 NC_004683.1 + 32853 0.67 0.603871
Target:  5'- aCUUGccGCGGCUgCCGUcgucGACCuugCCGAGCa -3'
miRNA:   3'- gGAACc-UGCCGA-GGUA----CUGG---GGCUCG- -5'
18854 5' -57.1 NC_004683.1 + 28414 0.68 0.54033
Target:  5'- ---cGGGCGGUUCCGcucacGCUCUGGGCa -3'
miRNA:   3'- ggaaCCUGCCGAGGUac---UGGGGCUCG- -5'
18854 5' -57.1 NC_004683.1 + 42408 0.68 0.51859
Target:  5'- aCCUUGGGCuggagcuGGCUCaCGU-AUCCCGAccGCg -3'
miRNA:   3'- -GGAACCUG-------CCGAG-GUAcUGGGGCU--CG- -5'
18854 5' -57.1 NC_004683.1 + 8087 0.69 0.459568
Target:  5'- cCCgcaucGACGGCgCCGacGACCCCGAGg -3'
miRNA:   3'- -GGaac--CUGCCGaGGUa-CUGGGGCUCg -5'
18854 5' -57.1 NC_004683.1 + 17812 0.69 0.447998
Target:  5'- gCCUUGGcgacgaGCGGUgcgUCCuucucgaugcgGGCCUCGAGCa -3'
miRNA:   3'- -GGAACC------UGCCG---AGGua---------CUGGGGCUCG- -5'
18854 5' -57.1 NC_004683.1 + 19297 0.7 0.440376
Target:  5'- aCCgguggugUGGAUGGcCUCCgAUGAgucaCCCgCGGGCa -3'
miRNA:   3'- -GGa------ACCUGCC-GAGG-UACU----GGG-GCUCG- -5'
18854 5' -57.1 NC_004683.1 + 14744 0.7 0.430952
Target:  5'- ---cGGuACGGCUCaCcgGAUCCgGGGCa -3'
miRNA:   3'- ggaaCC-UGCCGAG-GuaCUGGGgCUCG- -5'
18854 5' -57.1 NC_004683.1 + 11803 0.71 0.368465
Target:  5'- ---cGGACGGUUCCucacgcagGGCCuuCCGGGCa -3'
miRNA:   3'- ggaaCCUGCCGAGGua------CUGG--GGCUCG- -5'
18854 5' -57.1 NC_004683.1 + 3440 0.71 0.343655
Target:  5'- aCCUUGGGCGGauagaCCuUGugCgCGAGCc -3'
miRNA:   3'- -GGAACCUGCCga---GGuACugGgGCUCG- -5'
18854 5' -57.1 NC_004683.1 + 56065 0.71 0.343655
Target:  5'- gCCUUcGACGGCUUCAaugcgaUGGCCUCGGuGCc -3'
miRNA:   3'- -GGAAcCUGCCGAGGU------ACUGGGGCU-CG- -5'
18854 5' -57.1 NC_004683.1 + 31779 0.72 0.335657
Target:  5'- ---gGGGuuUGGCuugUCCuUGGCCCCGAGCa -3'
miRNA:   3'- ggaaCCU--GCCG---AGGuACUGGGGCUCG- -5'
18854 5' -57.1 NC_004683.1 + 39765 0.72 0.32007
Target:  5'- gCCggGGuCGGCaCCAUGACCUCGAuGUu -3'
miRNA:   3'- -GGaaCCuGCCGaGGUACUGGGGCU-CG- -5'
18854 5' -57.1 NC_004683.1 + 582 0.75 0.22041
Target:  5'- aCUUGGcGgGGUUCCcgccgGAUCCCGAGCa -3'
miRNA:   3'- gGAACC-UgCCGAGGua---CUGGGGCUCG- -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.