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
19667 5' -56.8 NC_004686.1 + 20357 0.66 0.653533
Target:  5'- -gGGCGGug----CGUGGCCGGCa-- -3'
miRNA:   3'- aaCUGCCuuugcaGCACCGGCCGcug -5'
19667 5' -56.8 NC_004686.1 + 42808 0.66 0.620778
Target:  5'- ---cCGGcAGCGUCGggguuccGCCGGUGACa -3'
miRNA:   3'- aacuGCCuUUGCAGCac-----CGGCCGCUG- -5'
19667 5' -56.8 NC_004686.1 + 19042 0.66 0.620778
Target:  5'- gUGugGGc-GgGUCGggugcUGGCCGGCaGGCg -3'
miRNA:   3'- aACugCCuuUgCAGC-----ACCGGCCG-CUG- -5'
19667 5' -56.8 NC_004686.1 + 13370 0.66 0.620778
Target:  5'- -cGGgGGAAACccCGUGaaCCGGCGACu -3'
miRNA:   3'- aaCUgCCUUUGcaGCACc-GGCCGCUG- -5'
19667 5' -56.8 NC_004686.1 + 25603 0.66 0.61423
Target:  5'- aUGGCGGAGAucaagacgucggaucCGUCGUGgaGCUGG-GACc -3'
miRNA:   3'- aACUGCCUUU---------------GCAGCAC--CGGCCgCUG- -5'
19667 5' -56.8 NC_004686.1 + 50671 0.66 0.610957
Target:  5'- -gGACGGuguccgacaccgccGCGUUcaGGCCGGCGAa -3'
miRNA:   3'- aaCUGCCuu------------UGCAGcaCCGGCCGCUg -5'
19667 5' -56.8 NC_004686.1 + 29447 0.67 0.577281
Target:  5'- aUGACGGAu-CGUCGUGGaucauGUGGCu -3'
miRNA:   3'- aACUGCCUuuGCAGCACCggc--CGCUG- -5'
19667 5' -56.8 NC_004686.1 + 25139 0.67 0.577281
Target:  5'- gUGACGGAGaagauucgGCGUgcUGUGGUC-GCGGCc -3'
miRNA:   3'- aACUGCCUU--------UGCA--GCACCGGcCGCUG- -5'
19667 5' -56.8 NC_004686.1 + 30741 0.67 0.566498
Target:  5'- gUGuCGGAcGCGga--GGUCGGCGACa -3'
miRNA:   3'- aACuGCCUuUGCagcaCCGGCCGCUG- -5'
19667 5' -56.8 NC_004686.1 + 28396 0.67 0.556837
Target:  5'- gUGugGcGAACGUCGaguagugcggguuugGGuuGGCGGCg -3'
miRNA:   3'- aACugCcUUUGCAGCa--------------CCggCCGCUG- -5'
19667 5' -56.8 NC_004686.1 + 42694 0.67 0.555766
Target:  5'- gUUGACGGGguuguGGCGggaugCGaaGGCCGGUGAg -3'
miRNA:   3'- -AACUGCCU-----UUGCa----GCa-CCGGCCGCUg -5'
19667 5' -56.8 NC_004686.1 + 176 0.67 0.555766
Target:  5'- gUUGGCGGGugcCGggCG-GGUgGGCGACg -3'
miRNA:   3'- -AACUGCCUuu-GCa-GCaCCGgCCGCUG- -5'
19667 5' -56.8 NC_004686.1 + 10412 0.67 0.541906
Target:  5'- -cGGCGGAugaaguguugGGCGUCGuUGGUgguggugaauucggCGGUGACg -3'
miRNA:   3'- aaCUGCCU----------UUGCAGC-ACCG--------------GCCGCUG- -5'
19667 5' -56.8 NC_004686.1 + 30590 0.67 0.541906
Target:  5'- -cGACGGAuccGACGUCuugaucuccgccauGUaccgcaGGCCGGCGGa -3'
miRNA:   3'- aaCUGCCU---UUGCAG--------------CA------CCGGCCGCUg -5'
19667 5' -56.8 NC_004686.1 + 22341 0.68 0.52396
Target:  5'- aUGGCGGGuuCGgaucGGCgGGCGGCa -3'
miRNA:   3'- aACUGCCUuuGCagcaCCGgCCGCUG- -5'
19667 5' -56.8 NC_004686.1 + 52848 0.68 0.52396
Target:  5'- -gGACGGugcagGAACGaUCgGUGGCCGGuCGGa -3'
miRNA:   3'- aaCUGCC-----UUUGC-AG-CACCGGCC-GCUg -5'
19667 5' -56.8 NC_004686.1 + 24159 0.68 0.52396
Target:  5'- cUGugGGaAAGCGguggauggggUGUGGCCGuGUGGCc -3'
miRNA:   3'- aACugCC-UUUGCa---------GCACCGGC-CGCUG- -5'
19667 5' -56.8 NC_004686.1 + 39592 0.68 0.522911
Target:  5'- gUGGCGu---UGUCGUGGaacgguuggaccaCCGGCGACa -3'
miRNA:   3'- aACUGCcuuuGCAGCACC-------------GGCCGCUG- -5'
19667 5' -56.8 NC_004686.1 + 19558 0.68 0.503146
Target:  5'- -cGcCGGAAACgGUUGUGGUgGGCaaGACg -3'
miRNA:   3'- aaCuGCCUUUG-CAGCACCGgCCG--CUG- -5'
19667 5' -56.8 NC_004686.1 + 33218 0.69 0.462663
Target:  5'- gUUGGCGGAGGuguUGUUGUGuucgauGCUGGCGAUu -3'
miRNA:   3'- -AACUGCCUUU---GCAGCAC------CGGCCGCUG- -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.