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
24910 3' -56 NC_005284.1 + 5926 0.66 0.696825
Target:  5'- aACGACGCcGAGaugcaggCGgCaGUUGCGGACg -3'
miRNA:   3'- -UGCUGCGcCUUa------GCgGcCAACGUCUG- -5'
24910 3' -56 NC_005284.1 + 21849 0.66 0.67516
Target:  5'- cCGGCGUGGGcgauggugcCGCCGccuaUGCAGACg -3'
miRNA:   3'- uGCUGCGCCUua-------GCGGCca--ACGUCUG- -5'
24910 3' -56 NC_005284.1 + 16178 0.66 0.664261
Target:  5'- uCGGCGCGucGAuggCGCUGGgcggcaucgUGCAGAUg -3'
miRNA:   3'- uGCUGCGC--CUua-GCGGCCa--------ACGUCUG- -5'
24910 3' -56 NC_005284.1 + 5300 0.66 0.664261
Target:  5'- -aGGCGCGGcGUCGuaccguugaCCGGaUUGCcGACg -3'
miRNA:   3'- ugCUGCGCCuUAGC---------GGCC-AACGuCUG- -5'
24910 3' -56 NC_005284.1 + 14967 0.67 0.631429
Target:  5'- uCGAgCGCGGGAUCGCucacCGGUUGUc--- -3'
miRNA:   3'- uGCU-GCGCCUUAGCG----GCCAACGucug -5'
24910 3' -56 NC_005284.1 + 45507 0.67 0.631429
Target:  5'- cGCGACGcCGcGAauaucGUCGCCGGccGC-GACu -3'
miRNA:   3'- -UGCUGC-GC-CU-----UAGCGGCCaaCGuCUG- -5'
24910 3' -56 NC_005284.1 + 12383 0.67 0.631429
Target:  5'- gGCGggaGCGCGGGAggaggggauUCGCCGGcgcGCAacGGCg -3'
miRNA:   3'- -UGC---UGCGCCUU---------AGCGGCCaa-CGU--CUG- -5'
24910 3' -56 NC_005284.1 + 48257 0.67 0.620473
Target:  5'- gACGGCGCG---UUGCCG--UGCGGGCa -3'
miRNA:   3'- -UGCUGCGCcuuAGCGGCcaACGUCUG- -5'
24910 3' -56 NC_005284.1 + 10944 0.68 0.57684
Target:  5'- cAUGGC-CGGccucGUCGCCGGacgaGCGGACg -3'
miRNA:   3'- -UGCUGcGCCu---UAGCGGCCaa--CGUCUG- -5'
24910 3' -56 NC_005284.1 + 50674 0.68 0.566024
Target:  5'- gACGugGCGGAauuAUCGUCuGUgaGCGGAa -3'
miRNA:   3'- -UGCugCGCCU---UAGCGGcCAa-CGUCUg -5'
24910 3' -56 NC_005284.1 + 37381 0.68 0.566024
Target:  5'- gACGcCGCGGucGUCGCCGuagcGUUGCAccuucacaccGACg -3'
miRNA:   3'- -UGCuGCGCCu-UAGCGGC----CAACGU----------CUG- -5'
24910 3' -56 NC_005284.1 + 3721 0.68 0.55526
Target:  5'- aGCGGC-CGGGcGUUGCCGGUUcugugGCAGcACg -3'
miRNA:   3'- -UGCUGcGCCU-UAGCGGCCAA-----CGUC-UG- -5'
24910 3' -56 NC_005284.1 + 21904 0.68 0.55526
Target:  5'- gGCGGCGCuGGAAgCGCCGG--GCAcGCc -3'
miRNA:   3'- -UGCUGCG-CCUUaGCGGCCaaCGUcUG- -5'
24910 3' -56 NC_005284.1 + 7816 0.68 0.544558
Target:  5'- uGCGAuCGgGGAGUuacgcCGCCGGcgGCGGcACg -3'
miRNA:   3'- -UGCU-GCgCCUUA-----GCGGCCaaCGUC-UG- -5'
24910 3' -56 NC_005284.1 + 19257 0.68 0.533923
Target:  5'- cGCGuCGCGGcGUCGUaucagaucaaGG-UGCAGACg -3'
miRNA:   3'- -UGCuGCGCCuUAGCGg---------CCaACGUCUG- -5'
24910 3' -56 NC_005284.1 + 27301 0.69 0.512884
Target:  5'- -aGugGUGGAcgCGCUGcacGUaUGCAGACg -3'
miRNA:   3'- ugCugCGCCUuaGCGGC---CA-ACGUCUG- -5'
24910 3' -56 NC_005284.1 + 13066 0.69 0.496302
Target:  5'- cGCGACGCGGuuguuGUCGCCGccacuuccgcugGguGGCu -3'
miRNA:   3'- -UGCUGCGCCu----UAGCGGCcaa---------CguCUG- -5'
24910 3' -56 NC_005284.1 + 1204 0.7 0.452032
Target:  5'- gGCGACGCGccGUCGCCcgGGUUGCc--- -3'
miRNA:   3'- -UGCUGCGCcuUAGCGG--CCAACGucug -5'
24910 3' -56 NC_005284.1 + 31016 0.7 0.413727
Target:  5'- uGCG-UGCGGaAGUUGCCGGUuggcucgcUGUAGAUg -3'
miRNA:   3'- -UGCuGCGCC-UUAGCGGCCA--------ACGUCUG- -5'
24910 3' -56 NC_005284.1 + 5232 0.73 0.275163
Target:  5'- uACGACGCcgcgccuguGGAAUCuGCCGGUcguugaaacGCAGGCg -3'
miRNA:   3'- -UGCUGCG---------CCUUAG-CGGCCAa--------CGUCUG- -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.