miRNA display CGI


Results 1 - 20 of 21 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
13168 3' -59.6 NC_003401.1 + 106025 0.66 0.744629
Target:  5'- cGCAUUccaGGAUGGgugugaggAGCCCCa-UGCCGc -3'
miRNA:   3'- uCGUAG---UCUGCCa-------UCGGGGgcACGGC- -5'
13168 3' -59.6 NC_003401.1 + 55012 0.66 0.741757
Target:  5'- aAGCAUugucuuguuaacggCAGAUGGgacuGCCCCCGcggcGCUGu -3'
miRNA:   3'- -UCGUA--------------GUCUGCCau--CGGGGGCa---CGGC- -5'
13168 3' -59.6 NC_003401.1 + 121542 0.66 0.735988
Target:  5'- cGCAaCAGGCGGUgAGCCacacagaccaccccaCCGgGCCGu -3'
miRNA:   3'- uCGUaGUCUGCCA-UCGGg--------------GGCaCGGC- -5'
13168 3' -59.6 NC_003401.1 + 79723 0.66 0.735023
Target:  5'- cGCuUCAGuugUGGUuGCCCCCGgcGCCu -3'
miRNA:   3'- uCGuAGUCu--GCCAuCGGGGGCa-CGGc -5'
13168 3' -59.6 NC_003401.1 + 122810 0.66 0.735023
Target:  5'- cGCAcUAuGCGGcGGUCCCCGUGCa- -3'
miRNA:   3'- uCGUaGUcUGCCaUCGGGGGCACGgc -5'
13168 3' -59.6 NC_003401.1 + 132430 0.66 0.70572
Target:  5'- cGCGggGGGcCGGggccGCCCCCGggUGCCGc -3'
miRNA:   3'- uCGUagUCU-GCCau--CGGGGGC--ACGGC- -5'
13168 3' -59.6 NC_003401.1 + 14953 0.67 0.665842
Target:  5'- cAGCGuUCAaGCGGaccgagcgacUGGCCCCCGUaCCGc -3'
miRNA:   3'- -UCGU-AGUcUGCC----------AUCGGGGGCAcGGC- -5'
13168 3' -59.6 NC_003401.1 + 132553 0.67 0.665842
Target:  5'- aAGCcgCGG-CGcGcGGCUCCCGaUGCCGg -3'
miRNA:   3'- -UCGuaGUCuGC-CaUCGGGGGC-ACGGC- -5'
13168 3' -59.6 NC_003401.1 + 110108 0.67 0.665842
Target:  5'- cGCuaaAGGCGGggcGGUCCCCGUGUg- -3'
miRNA:   3'- uCGuagUCUGCCa--UCGGGGGCACGgc -5'
13168 3' -59.6 NC_003401.1 + 104616 0.68 0.605383
Target:  5'- gAGCGUuccuaaaucgCGGACGGUGauggugccaaccGCCUgUGUGCCGa -3'
miRNA:   3'- -UCGUA----------GUCUGCCAU------------CGGGgGCACGGC- -5'
13168 3' -59.6 NC_003401.1 + 132370 0.68 0.595331
Target:  5'- cGGCGcCGGcCGGgcGCCUCCGggcccgGCCGc -3'
miRNA:   3'- -UCGUaGUCuGCCauCGGGGGCa-----CGGC- -5'
13168 3' -59.6 NC_003401.1 + 132666 0.68 0.585306
Target:  5'- gGGCGUCGGgGCGcGgcGCCgCCGggcucgGCCGg -3'
miRNA:   3'- -UCGUAGUC-UGC-CauCGGgGGCa-----CGGC- -5'
13168 3' -59.6 NC_003401.1 + 112519 0.68 0.575313
Target:  5'- gAGCAg-AGACaGGUaaaAGCCCuuGUGCUGc -3'
miRNA:   3'- -UCGUagUCUG-CCA---UCGGGggCACGGC- -5'
13168 3' -59.6 NC_003401.1 + 17492 0.69 0.555452
Target:  5'- cGGCGacgCGGACGcggcgcgcGUGGCCCCCGgguucgUGCUGg -3'
miRNA:   3'- -UCGUa--GUCUGC--------CAUCGGGGGC------ACGGC- -5'
13168 3' -59.6 NC_003401.1 + 103280 0.69 0.535796
Target:  5'- uGGCcUCGGACGGcGGUCgCUCGUGgCCGu -3'
miRNA:   3'- -UCGuAGUCUGCCaUCGG-GGGCAC-GGC- -5'
13168 3' -59.6 NC_003401.1 + 35483 0.69 0.516389
Target:  5'- cGGCAUCAGcGCGGUuacuuGCUUCCaUGCCa -3'
miRNA:   3'- -UCGUAGUC-UGCCAu----CGGGGGcACGGc -5'
13168 3' -59.6 NC_003401.1 + 17510 0.71 0.441983
Target:  5'- gGGaGUCGGACccuggcGUAGCCCCCGUGgCCc -3'
miRNA:   3'- -UCgUAGUCUGc-----CAUCGGGGGCAC-GGc -5'
13168 3' -59.6 NC_003401.1 + 73896 0.72 0.366045
Target:  5'- cGCGUC-GACGGUaAGCCCCUuUGUCGc -3'
miRNA:   3'- uCGUAGuCUGCCA-UCGGGGGcACGGC- -5'
13168 3' -59.6 NC_003401.1 + 122949 0.73 0.350436
Target:  5'- gGGCA-CGG-UGGUucAGCCCCCGUucGCCGg -3'
miRNA:   3'- -UCGUaGUCuGCCA--UCGGGGGCA--CGGC- -5'
13168 3' -59.6 NC_003401.1 + 126695 0.73 0.320657
Target:  5'- -aCGUCGGcCGGcAGCaCCCCGUGCCu -3'
miRNA:   3'- ucGUAGUCuGCCaUCG-GGGGCACGGc -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.