miRNA display CGI


Results 1 - 20 of 37 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
16249 5' -55.5 NC_004084.1 + 57992 1.1 0.00096
Target:  5'- uCGAGGUCGCCGUAGACGCUCUCGAUCa -3'
miRNA:   3'- -GCUCCAGCGGCAUCUGCGAGAGCUAG- -5'
16249 5' -55.5 NC_004084.1 + 35790 0.79 0.139075
Target:  5'- gGAGG-CGCCGggaaGGACGCgCUCGGUCa -3'
miRNA:   3'- gCUCCaGCGGCa---UCUGCGaGAGCUAG- -5'
16249 5' -55.5 NC_004084.1 + 36263 0.74 0.282767
Target:  5'- uCGAGuG-CGCCG-AGGCGCUCgCGGUCa -3'
miRNA:   3'- -GCUC-CaGCGGCaUCUGCGAGaGCUAG- -5'
16249 5' -55.5 NC_004084.1 + 6781 0.74 0.319706
Target:  5'- cCGAGGUC-UCGgcggGGACGUUCUCGAa- -3'
miRNA:   3'- -GCUCCAGcGGCa---UCUGCGAGAGCUag -5'
16249 5' -55.5 NC_004084.1 + 48497 0.73 0.335463
Target:  5'- uGAGGcUCGUCG-AGGCGCUCUUG-UCu -3'
miRNA:   3'- gCUCC-AGCGGCaUCUGCGAGAGCuAG- -5'
16249 5' -55.5 NC_004084.1 + 54617 0.73 0.35178
Target:  5'- uCGAGGUCGCCGUuacCGUUCguuugguacCGAUCg -3'
miRNA:   3'- -GCUCCAGCGGCAucuGCGAGa--------GCUAG- -5'
16249 5' -55.5 NC_004084.1 + 33596 0.72 0.413197
Target:  5'- -aAGGUCGuaGUgAGugGCgUCUCGAUCg -3'
miRNA:   3'- gcUCCAGCggCA-UCugCG-AGAGCUAG- -5'
16249 5' -55.5 NC_004084.1 + 16625 0.72 0.413197
Target:  5'- uCGAGGUCGaUCGU-GACGCcCUCGucGUCg -3'
miRNA:   3'- -GCUCCAGC-GGCAuCUGCGaGAGC--UAG- -5'
16249 5' -55.5 NC_004084.1 + 11727 0.72 0.413197
Target:  5'- aGAcGUCGCCGgcGACGUgCUCGaAUCg -3'
miRNA:   3'- gCUcCAGCGGCauCUGCGaGAGC-UAG- -5'
16249 5' -55.5 NC_004084.1 + 53016 0.7 0.525929
Target:  5'- aCGAGGUCagacuccucgaaacuGCUGUGGACGCccaggUUCGAcgUCg -3'
miRNA:   3'- -GCUCCAG---------------CGGCAUCUGCGa----GAGCU--AG- -5'
16249 5' -55.5 NC_004084.1 + 1009 0.69 0.542742
Target:  5'- uCGAGcUCGCCGgcGACG-UCgacgCGAUCg -3'
miRNA:   3'- -GCUCcAGCGGCauCUGCgAGa---GCUAG- -5'
16249 5' -55.5 NC_004084.1 + 13764 0.69 0.55334
Target:  5'- uCGAGGUCGCgcUGGGCggGCUCggaGAUCg -3'
miRNA:   3'- -GCUCCAGCGgcAUCUG--CGAGag-CUAG- -5'
16249 5' -55.5 NC_004084.1 + 18712 0.69 0.563999
Target:  5'- gCGucGUCGCCGUcacuGGCGggUUCGGUCg -3'
miRNA:   3'- -GCucCAGCGGCAu---CUGCgaGAGCUAG- -5'
16249 5' -55.5 NC_004084.1 + 50149 0.69 0.573638
Target:  5'- aCGAGGUCGuuGUcgaGGAUGUcgUCagcggcgUCGAUCg -3'
miRNA:   3'- -GCUCCAGCggCA---UCUGCG--AG-------AGCUAG- -5'
16249 5' -55.5 NC_004084.1 + 51169 0.69 0.574711
Target:  5'- aGAcGGUCGCCG-AGcACGCgC-CGAUCg -3'
miRNA:   3'- gCU-CCAGCGGCaUC-UGCGaGaGCUAG- -5'
16249 5' -55.5 NC_004084.1 + 41346 0.68 0.644004
Target:  5'- uGAGGcagcgauauccgaaaUCGUCGUcGACGauuacgaaCUCUCGAUCg -3'
miRNA:   3'- gCUCC---------------AGCGGCAuCUGC--------GAGAGCUAG- -5'
16249 5' -55.5 NC_004084.1 + 53556 0.67 0.650516
Target:  5'- aCGAGGUCGUCcugcuuGUGGAggugccggaugUGCUCgcgaCGAUCg -3'
miRNA:   3'- -GCUCCAGCGG------CAUCU-----------GCGAGa---GCUAG- -5'
16249 5' -55.5 NC_004084.1 + 35095 0.67 0.661355
Target:  5'- -cGGGUgacCGCUucugGUAcGCGCUCUCGGUCa -3'
miRNA:   3'- gcUCCA---GCGG----CAUcUGCGAGAGCUAG- -5'
16249 5' -55.5 NC_004084.1 + 22436 0.67 0.672168
Target:  5'- aCGAGGccaauacCGCCGUcuucggGGGCGCUCgCGAc- -3'
miRNA:   3'- -GCUCCa------GCGGCA------UCUGCGAGaGCUag -5'
16249 5' -55.5 NC_004084.1 + 49607 0.67 0.672168
Target:  5'- gCGAGuUCGCCGUcGACGgagaUCUCG-UCg -3'
miRNA:   3'- -GCUCcAGCGGCAuCUGCg---AGAGCuAG- -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.