miRNA display CGI


Results 1 - 20 of 52 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
22557 3' -57.2 NC_005091.1 + 3004 0.66 0.605013
Target:  5'- aUUGCAGGGCGACGCGu------UGCCu -3'
miRNA:   3'- -AACGUCUCGCUGUGCucgccguACGG- -5'
22557 3' -57.2 NC_005091.1 + 10786 0.66 0.594056
Target:  5'- -aGCAGAGUG-CGCGAacgaucGCGGCcaagGCg -3'
miRNA:   3'- aaCGUCUCGCuGUGCU------CGCCGua--CGg -5'
22557 3' -57.2 NC_005091.1 + 52228 0.66 0.594056
Target:  5'- gUGCGGGGCGGCuuugAC-AGCGGCuugaaccuuUGCg -3'
miRNA:   3'- aACGUCUCGCUG----UGcUCGCCGu--------ACGg -5'
22557 3' -57.2 NC_005091.1 + 52295 0.66 0.594056
Target:  5'- gUUGCGGAuCGAUuCGAcaGCGGCcaGUGCUg -3'
miRNA:   3'- -AACGUCUcGCUGuGCU--CGCCG--UACGG- -5'
22557 3' -57.2 NC_005091.1 + 21116 0.66 0.583131
Target:  5'- -cGCAuaccuGCGAcCAUGGGCGGguUGCa -3'
miRNA:   3'- aaCGUcu---CGCU-GUGCUCGCCguACGg -5'
22557 3' -57.2 NC_005091.1 + 49867 0.66 0.572247
Target:  5'- -gGCAGaAGcCGAUcgagcCGAGCGugcuGCAUGCCa -3'
miRNA:   3'- aaCGUC-UC-GCUGu----GCUCGC----CGUACGG- -5'
22557 3' -57.2 NC_005091.1 + 34852 0.66 0.561412
Target:  5'- -aGCGGAucGcCGACGCGcGCGGCcgggacaugGCCg -3'
miRNA:   3'- aaCGUCU--C-GCUGUGCuCGCCGua-------CGG- -5'
22557 3' -57.2 NC_005091.1 + 31281 0.66 0.561412
Target:  5'- -aGCAGc-CGAuCAUcGGCGGCAUGUCg -3'
miRNA:   3'- aaCGUCucGCU-GUGcUCGCCGUACGG- -5'
22557 3' -57.2 NC_005091.1 + 26682 0.66 0.550633
Target:  5'- cUGCuGcGGCGGC-CG-GCGGCG-GCCg -3'
miRNA:   3'- aACGuC-UCGCUGuGCuCGCCGUaCGG- -5'
22557 3' -57.2 NC_005091.1 + 993 0.66 0.550633
Target:  5'- -cGCAGGccugcuCGACGCGGGCGcGC-UGCUc -3'
miRNA:   3'- aaCGUCUc-----GCUGUGCUCGC-CGuACGG- -5'
22557 3' -57.2 NC_005091.1 + 25746 0.66 0.550633
Target:  5'- gUGCAGu---ACACGGGCGGUcucgGCCa -3'
miRNA:   3'- aACGUCucgcUGUGCUCGCCGua--CGG- -5'
22557 3' -57.2 NC_005091.1 + 48763 0.67 0.539919
Target:  5'- -gGCcGuGCGcacGCAUGA-CGGCAUGCCu -3'
miRNA:   3'- aaCGuCuCGC---UGUGCUcGCCGUACGG- -5'
22557 3' -57.2 NC_005091.1 + 36405 0.67 0.539919
Target:  5'- -gGCGGA-UGACaaGCGGGuCGGCAcGCCg -3'
miRNA:   3'- aaCGUCUcGCUG--UGCUC-GCCGUaCGG- -5'
22557 3' -57.2 NC_005091.1 + 16055 0.67 0.539919
Target:  5'- -cGCAGAGCGACAagcaggucauCGcGUGGaacGCCg -3'
miRNA:   3'- aaCGUCUCGCUGU----------GCuCGCCguaCGG- -5'
22557 3' -57.2 NC_005091.1 + 55844 0.67 0.528217
Target:  5'- -cGCAGccggucagcaacuGGCG-CACGAGCuGCAcgGCCu -3'
miRNA:   3'- aaCGUC-------------UCGCuGUGCUCGcCGUa-CGG- -5'
22557 3' -57.2 NC_005091.1 + 6586 0.67 0.497842
Target:  5'- aUGUGGAuCGAguCGGGCGGCAccaUGCg -3'
miRNA:   3'- aACGUCUcGCUguGCUCGCCGU---ACGg -5'
22557 3' -57.2 NC_005091.1 + 15618 0.67 0.497842
Target:  5'- aUUGCGGuGacuGACAaucUGAGCGGCG-GCCc -3'
miRNA:   3'- -AACGUCuCg--CUGU---GCUCGCCGUaCGG- -5'
22557 3' -57.2 NC_005091.1 + 45794 0.67 0.497842
Target:  5'- -aGCAGuAGcCGGCGCG-GCGcGCG-GCCg -3'
miRNA:   3'- aaCGUC-UC-GCUGUGCuCGC-CGUaCGG- -5'
22557 3' -57.2 NC_005091.1 + 26228 0.67 0.497842
Target:  5'- -gGCAGcuuCGGCcUGAGCGGCA-GCCc -3'
miRNA:   3'- aaCGUCuc-GCUGuGCUCGCCGUaCGG- -5'
22557 3' -57.2 NC_005091.1 + 41429 0.67 0.497842
Target:  5'- cUGUAcGAGCugGAUcagcucaucaACGAucGCGGCGUGCCg -3'
miRNA:   3'- aACGU-CUCG--CUG----------UGCU--CGCCGUACGG- -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.