miRNA display CGI


Results 1 - 13 of 13 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
16980 3' -57.6 NC_004323.1 + 32261 1.05 0.002743
Target:  5'- aAAAAACGGCCGGCCUAACGGCGGCGUg -3'
miRNA:   3'- -UUUUUGCCGGCCGGAUUGCCGCCGCA- -5'
16980 3' -57.6 NC_004323.1 + 35495 0.71 0.529562
Target:  5'- -cGAugGGCUGGCaccgGACGGCaGGCa- -3'
miRNA:   3'- uuUUugCCGGCCGga--UUGCCG-CCGca -5'
16980 3' -57.6 NC_004323.1 + 99213 0.69 0.600628
Target:  5'- ---cGCGGCCGGCaauACGGaguuucgguguCGGCGUu -3'
miRNA:   3'- uuuuUGCCGGCCGgauUGCC-----------GCCGCA- -5'
16980 3' -57.6 NC_004323.1 + 87938 0.69 0.601657
Target:  5'- ---uGCGGCCaGGUCgcuggauguuauucGCGGCGGCGa -3'
miRNA:   3'- uuuuUGCCGG-CCGGau------------UGCCGCCGCa -5'
16980 3' -57.6 NC_004323.1 + 63870 0.69 0.625379
Target:  5'- --uGACGGCCGGCgaauugaccgcgUUGGCGGCcgacguuaaaaagguGGCGUu -3'
miRNA:   3'- uuuUUGCCGGCCG------------GAUUGCCG---------------CCGCA- -5'
16980 3' -57.6 NC_004323.1 + 4673 0.68 0.683049
Target:  5'- -cAGACGGCaaaucuaCUAAUGGCGGCGg -3'
miRNA:   3'- uuUUUGCCGgccg---GAUUGCCGCCGCa -5'
16980 3' -57.6 NC_004323.1 + 4743 0.68 0.693251
Target:  5'- cGGGGCaGGCgGGgCUGGCGGCggaGGCGg -3'
miRNA:   3'- uUUUUG-CCGgCCgGAUUGCCG---CCGCa -5'
16980 3' -57.6 NC_004323.1 + 86360 0.67 0.71349
Target:  5'- ----cCGG-CGGCCUGuuGCGGCGGUu- -3'
miRNA:   3'- uuuuuGCCgGCCGGAU--UGCCGCCGca -5'
16980 3' -57.6 NC_004323.1 + 85729 0.67 0.71349
Target:  5'- gGAAGGCuGCgCGGgC--GCGGCGGCGUu -3'
miRNA:   3'- -UUUUUGcCG-GCCgGauUGCCGCCGCA- -5'
16980 3' -57.6 NC_004323.1 + 40649 0.67 0.733446
Target:  5'- cAAGACGGCCGacgacgacGCgUAcACGGUGGUGa -3'
miRNA:   3'- uUUUUGCCGGC--------CGgAU-UGCCGCCGCa -5'
16980 3' -57.6 NC_004323.1 + 120030 0.67 0.743294
Target:  5'- --cGACGG-CGGCgagUUGGCGGCaGGCGUu -3'
miRNA:   3'- uuuUUGCCgGCCG---GAUUGCCG-CCGCA- -5'
16980 3' -57.6 NC_004323.1 + 12219 0.66 0.781604
Target:  5'- --uAGCGaGUCuG-CUGACGGCGGCGUu -3'
miRNA:   3'- uuuUUGC-CGGcCgGAUUGCCGCCGCA- -5'
16980 3' -57.6 NC_004323.1 + 129528 0.66 0.790863
Target:  5'- --uGGCGGCUGcuGCUgggAGUGGCGGCGUu -3'
miRNA:   3'- uuuUUGCCGGC--CGGa--UUGCCGCCGCA- -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.