miRNA display CGI


Results 1 - 20 of 30 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
20377 3' -55.4 NC_004687.1 + 59674 0.66 0.943275
Target:  5'- aGCGUgaucaGGaGGUcGCCCGcuACCGcUGAACAc -3'
miRNA:   3'- -CGCA-----CC-CCGuUGGGCu-UGGC-ACUUGU- -5'
20377 3' -55.4 NC_004687.1 + 137242 0.66 0.943275
Target:  5'- gGCGcGGGGUGGCCUGGA---UGGACAc -3'
miRNA:   3'- -CGCaCCCCGUUGGGCUUggcACUUGU- -5'
20377 3' -55.4 NC_004687.1 + 117523 0.66 0.943275
Target:  5'- gGUGcGGGGCGcCCCGGguggcccagGCgGUGGGCc -3'
miRNA:   3'- -CGCaCCCCGUuGGGCU---------UGgCACUUGu -5'
20377 3' -55.4 NC_004687.1 + 69788 0.66 0.943275
Target:  5'- ---cGGuucucGGCGAUCCGGgcggACCGUGGACGg -3'
miRNA:   3'- cgcaCC-----CCGUUGGGCU----UGGCACUUGU- -5'
20377 3' -55.4 NC_004687.1 + 94200 0.66 0.938649
Target:  5'- aCGUGGGcGUGgcGCCCGGcgcguucugAUCGUGGACc -3'
miRNA:   3'- cGCACCC-CGU--UGGGCU---------UGGCACUUGu -5'
20377 3' -55.4 NC_004687.1 + 144637 0.66 0.938649
Target:  5'- uGUGUGGGGUcgguaucGCCUGGcacGCCGggcaGGGCAg -3'
miRNA:   3'- -CGCACCCCGu------UGGGCU---UGGCa---CUUGU- -5'
20377 3' -55.4 NC_004687.1 + 90025 0.66 0.933788
Target:  5'- -aGUGGGGCucUCCGuucGCUGUGGuCAg -3'
miRNA:   3'- cgCACCCCGuuGGGCu--UGGCACUuGU- -5'
20377 3' -55.4 NC_004687.1 + 75448 0.66 0.933289
Target:  5'- cGCGUGcGGGCcgcgcuCCCGccgagcugccgcaGACCGccGAGCAg -3'
miRNA:   3'- -CGCAC-CCCGuu----GGGC-------------UUGGCa-CUUGU- -5'
20377 3' -55.4 NC_004687.1 + 44599 0.66 0.92869
Target:  5'- gGCGgcGGuGGCuucGACCCGAACa-UGAACGa -3'
miRNA:   3'- -CGCa-CC-CCG---UUGGGCUUGgcACUUGU- -5'
20377 3' -55.4 NC_004687.1 + 1793 0.66 0.923355
Target:  5'- cGCGcaGGuGGcCGACCCGGAUgGUGAGa- -3'
miRNA:   3'- -CGCa-CC-CC-GUUGGGCUUGgCACUUgu -5'
20377 3' -55.4 NC_004687.1 + 1114 0.67 0.911975
Target:  5'- ----cGGGC-GCCCGGGCCGaucUGGACAg -3'
miRNA:   3'- cgcacCCCGuUGGGCUUGGC---ACUUGU- -5'
20377 3' -55.4 NC_004687.1 + 140632 0.67 0.911975
Target:  5'- gGCG-GGGGCGGCggCGAgagugaucAUCGUGAGCu -3'
miRNA:   3'- -CGCaCCCCGUUGg-GCU--------UGGCACUUGu -5'
20377 3' -55.4 NC_004687.1 + 145485 0.67 0.905932
Target:  5'- aGCGUGGGcagcuGCGACUCGGucACCGgcacGACGg -3'
miRNA:   3'- -CGCACCC-----CGUUGGGCU--UGGCac--UUGU- -5'
20377 3' -55.4 NC_004687.1 + 136584 0.67 0.899657
Target:  5'- cGCGcUGGGGUuguggcgcugGACCCGGucACCGgcgGAAg- -3'
miRNA:   3'- -CGC-ACCCCG----------UUGGGCU--UGGCa--CUUgu -5'
20377 3' -55.4 NC_004687.1 + 91047 0.67 0.893152
Target:  5'- cGCGcGGGauGUcGCCC--GCCGUGAGCAg -3'
miRNA:   3'- -CGCaCCC--CGuUGGGcuUGGCACUUGU- -5'
20377 3' -55.4 NC_004687.1 + 149920 0.68 0.879465
Target:  5'- aGCGcGGccucGGCAG-CCGAGCCGaGAACAu -3'
miRNA:   3'- -CGCaCC----CCGUUgGGCUUGGCaCUUGU- -5'
20377 3' -55.4 NC_004687.1 + 69082 0.68 0.878758
Target:  5'- cGCGccagaGcGGGUgaucaccGACCCGAACCG-GGACAc -3'
miRNA:   3'- -CGCa----C-CCCG-------UUGGGCUUGGCaCUUGU- -5'
20377 3' -55.4 NC_004687.1 + 66801 0.68 0.864906
Target:  5'- uCGUGGGGCAACCa-GGCCaUGGGa- -3'
miRNA:   3'- cGCACCCCGUUGGgcUUGGcACUUgu -5'
20377 3' -55.4 NC_004687.1 + 71607 0.68 0.857312
Target:  5'- gGCGUGGGGuCGGCgCUGuuGCCGUaGACc -3'
miRNA:   3'- -CGCACCCC-GUUG-GGCu-UGGCAcUUGu -5'
20377 3' -55.4 NC_004687.1 + 133003 0.68 0.849516
Target:  5'- -gGUGGGGCGAUCCGGAgguuCCGUc---- -3'
miRNA:   3'- cgCACCCCGUUGGGCUU----GGCAcuugu -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.