miRNA display CGI


Results 1 - 20 of 69 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
14288 3' -54.3 NC_003521.1 + 5594 1.08 0.008123
Target:  5'- gUCGAACACGCGGUAGAGGUGCGACUGc -3'
miRNA:   3'- -AGCUUGUGCGCCAUCUCCACGCUGAC- -5'
14288 3' -54.3 NC_003521.1 + 111062 0.78 0.514828
Target:  5'- -gGGACagGCGCGGUAGAGG-GCGGCg- -3'
miRNA:   3'- agCUUG--UGCGCCAUCUCCaCGCUGac -5'
14288 3' -54.3 NC_003521.1 + 114006 0.77 0.563314
Target:  5'- gCGAGCACGCgaaGGUgcuGGAGGUGCGcgcggaGCUGg -3'
miRNA:   3'- aGCUUGUGCG---CCA---UCUCCACGC------UGAC- -5'
14288 3' -54.3 NC_003521.1 + 102758 0.76 0.592997
Target:  5'- -gGuGCACGCGGUAGAGcGgcaGCGGCUGc -3'
miRNA:   3'- agCuUGUGCGCCAUCUC-Ca--CGCUGAC- -5'
14288 3' -54.3 NC_003521.1 + 4446 0.75 0.682755
Target:  5'- cUCGAGCAUGCGG-AGcGaUGCGGCUGa -3'
miRNA:   3'- -AGCUUGUGCGCCaUCuCcACGCUGAC- -5'
14288 3' -54.3 NC_003521.1 + 112069 0.73 0.750598
Target:  5'- -aGGACGcCGCGGUGGggaucAGGgGCGGCUGg -3'
miRNA:   3'- agCUUGU-GCGCCAUC-----UCCaCGCUGAC- -5'
14288 3' -54.3 NC_003521.1 + 157035 0.73 0.750598
Target:  5'- uUCGGGgGCGCGGUcGGAGGagcGCGGCg- -3'
miRNA:   3'- -AGCUUgUGCGCCA-UCUCCa--CGCUGac -5'
14288 3' -54.3 NC_003521.1 + 235163 0.73 0.760892
Target:  5'- cCGAGCGCGauuggcgucgcgucaUGGUGGAaucccacgcccuguGGUGCGACUGc -3'
miRNA:   3'- aGCUUGUGC---------------GCCAUCU--------------CCACGCUGAC- -5'
14288 3' -54.3 NC_003521.1 + 216731 0.73 0.769216
Target:  5'- cCGGAUugGCGG-AGAGGggaugagGCGACg- -3'
miRNA:   3'- aGCUUGugCGCCaUCUCCa------CGCUGac -5'
14288 3' -54.3 NC_003521.1 + 103069 0.73 0.769216
Target:  5'- gCGggUGCGCGGgcGAGGgcUGCuGCUGg -3'
miRNA:   3'- aGCuuGUGCGCCauCUCC--ACGcUGAC- -5'
14288 3' -54.3 NC_003521.1 + 45160 0.72 0.796248
Target:  5'- -gGAccGCACGCGuaaGUGGuGGUGCGACUc -3'
miRNA:   3'- agCU--UGUGCGC---CAUCuCCACGCUGAc -5'
14288 3' -54.3 NC_003521.1 + 499 0.72 0.830275
Target:  5'- -aGAACACGCGGUuuucAGGGGUGaCGcGCg- -3'
miRNA:   3'- agCUUGUGCGCCA----UCUCCAC-GC-UGac -5'
14288 3' -54.3 NC_003521.1 + 200726 0.72 0.830275
Target:  5'- -aGAACACGCGGUuuucAGGGGUGaCGcGCg- -3'
miRNA:   3'- agCUUGUGCGCCA----UCUCCAC-GC-UGac -5'
14288 3' -54.3 NC_003521.1 + 162238 0.71 0.865984
Target:  5'- cCGAcggcGCugGCGGggugggcgucaacGGGGGUGCGACa- -3'
miRNA:   3'- aGCU----UGugCGCCa------------UCUCCACGCUGac -5'
14288 3' -54.3 NC_003521.1 + 224805 0.71 0.876034
Target:  5'- -gGGACGCGCGuggcGUAGGGcGUcuGCGGCUGg -3'
miRNA:   3'- agCUUGUGCGC----CAUCUC-CA--CGCUGAC- -5'
14288 3' -54.3 NC_003521.1 + 134557 0.71 0.876034
Target:  5'- aCGGcgAUGCGCagcucguccaGGUAGGGGUGCaGGCUGa -3'
miRNA:   3'- aGCU--UGUGCG----------CCAUCUCCACG-CUGAC- -5'
14288 3' -54.3 NC_003521.1 + 88048 0.7 0.882964
Target:  5'- gUUGAGCGCGCGGauGAGGUcgcgguggucgGCGGCg- -3'
miRNA:   3'- -AGCUUGUGCGCCauCUCCA-----------CGCUGac -5'
14288 3' -54.3 NC_003521.1 + 85872 0.7 0.896183
Target:  5'- -aGGGCAccaggcgcuCGCGGUAGAGGcGCGugUc -3'
miRNA:   3'- agCUUGU---------GCGCCAUCUCCaCGCugAc -5'
14288 3' -54.3 NC_003521.1 + 211713 0.7 0.902465
Target:  5'- gCGcAGCGCGCGGau--GGUGCGGCg- -3'
miRNA:   3'- aGC-UUGUGCGCCaucuCCACGCUGac -5'
14288 3' -54.3 NC_003521.1 + 18772 0.7 0.902465
Target:  5'- aCGAgaccacGCAgGCGGUGGAGGgccaGCG-CUGc -3'
miRNA:   3'- aGCU------UGUgCGCCAUCUCCa---CGCuGAC- -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.