miRNA display CGI


Results 1 - 16 of 16 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
28008 5' -56.3 NC_005887.1 + 41229 0.66 0.60906
Target:  5'- uGACCGAGCUCGACaagcacacgcaccuGcUCgGcGUCGg- -3'
miRNA:   3'- gCUGGCUCGAGCUG--------------CaAGgC-CAGCau -5'
28008 5' -56.3 NC_005887.1 + 40405 0.69 0.434191
Target:  5'- cCGGCaCG-GC-CGACGUgCCGGUCGa- -3'
miRNA:   3'- -GCUG-GCuCGaGCUGCAaGGCCAGCau -5'
28008 5' -56.3 NC_005887.1 + 39864 0.7 0.361184
Target:  5'- aGGCCGGGCUCGcCGUcgaugaUCCGcGUCa-- -3'
miRNA:   3'- gCUGGCUCGAGCuGCA------AGGC-CAGcau -5'
28008 5' -56.3 NC_005887.1 + 36458 1.07 0.000936
Target:  5'- gCGACCGAGCUCGACGUUCCGGUCGUAg -3'
miRNA:   3'- -GCUGGCUCGAGCUGCAAGGCCAGCAU- -5'
28008 5' -56.3 NC_005887.1 + 33919 0.66 0.590398
Target:  5'- uGACgCGGaucGCUCGGCGauagcCUGGUCGUGc -3'
miRNA:   3'- gCUG-GCU---CGAGCUGCaa---GGCCAGCAU- -5'
28008 5' -56.3 NC_005887.1 + 31301 0.68 0.463693
Target:  5'- uCGACCG-GCaUCGGCGcaCCGGUgGUc -3'
miRNA:   3'- -GCUGGCuCG-AGCUGCaaGGCCAgCAu -5'
28008 5' -56.3 NC_005887.1 + 30367 0.66 0.634392
Target:  5'- -uGCCGAGCUCGGUGUaCCGcUCGg- -3'
miRNA:   3'- gcUGGCUCGAGCUGCAaGGCcAGCau -5'
28008 5' -56.3 NC_005887.1 + 26737 0.67 0.536249
Target:  5'- aGACCGGGCgcaCGAuCGgcucgUCCaGGUCGa- -3'
miRNA:   3'- gCUGGCUCGa--GCU-GCa----AGG-CCAGCau -5'
28008 5' -56.3 NC_005887.1 + 24744 0.66 0.616763
Target:  5'- gCGaACCGAGCUucgggccggCGACGUuguccagaucccacgUCCGGUaGUAg -3'
miRNA:   3'- -GC-UGGCUCGA---------GCUGCA---------------AGGCCAgCAU- -5'
28008 5' -56.3 NC_005887.1 + 17750 0.71 0.356064
Target:  5'- aCGGCCGcgcGGCUgaUGGCGcccgguucgaaggacUUCCGGUCGUGg -3'
miRNA:   3'- -GCUGGC---UCGA--GCUGC---------------AAGGCCAGCAU- -5'
28008 5' -56.3 NC_005887.1 + 16473 0.67 0.54696
Target:  5'- uCGACCGcGCggcaggaucCGGCGggCUGGUCGg- -3'
miRNA:   3'- -GCUGGCuCGa--------GCUGCaaGGCCAGCau -5'
28008 5' -56.3 NC_005887.1 + 15631 0.67 0.536249
Target:  5'- gCGGCCGGGCUCGcCGaucagggcgCCGuGUCGc- -3'
miRNA:   3'- -GCUGGCUCGAGCuGCaa-------GGC-CAGCau -5'
28008 5' -56.3 NC_005887.1 + 14690 0.69 0.415138
Target:  5'- aCGAUCGGGCUCGucgcggcggGCGggCCGGgcgCGg- -3'
miRNA:   3'- -GCUGGCUCGAGC---------UGCaaGGCCa--GCau -5'
28008 5' -56.3 NC_005887.1 + 11475 0.68 0.494211
Target:  5'- uGACCGAGCUCG-CGcUCUGG-Ca-- -3'
miRNA:   3'- gCUGGCUCGAGCuGCaAGGCCaGcau -5'
28008 5' -56.3 NC_005887.1 + 2002 0.67 0.557738
Target:  5'- aCGGCCGcGCUCGACGgccaguccaUUUCGG-CGg- -3'
miRNA:   3'- -GCUGGCuCGAGCUGC---------AAGGCCaGCau -5'
28008 5' -56.3 NC_005887.1 + 1974 0.66 0.579465
Target:  5'- gCGGCCGAGaacaUCGACaaccUCCGGcCGg- -3'
miRNA:   3'- -GCUGGCUCg---AGCUGca--AGGCCaGCau -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.