miRNA display CGI


Results 1 - 20 of 44 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
28865 3' -42.4 NC_006146.1 + 132937 0.66 1
Target:  5'- aACACCcgcggAGggGggGGGUGGUGg- -3'
miRNA:   3'- -UGUGGa----UCa-CuuUUCACCACgc -5'
28865 3' -42.4 NC_006146.1 + 33628 0.68 0.999999
Target:  5'- uGCACCUGGaaggcaacgggggugGggGAGggaggGGUGUGg -3'
miRNA:   3'- -UGUGGAUCa--------------CuuUUCa----CCACGC- -5'
28865 3' -42.4 NC_006146.1 + 33815 0.68 0.999999
Target:  5'- uGCACCUGGaaggcaacgggggugGggGAGggaggGGUGUGg -3'
miRNA:   3'- -UGUGGAUCa--------------CuuUUCa----CCACGC- -5'
28865 3' -42.4 NC_006146.1 + 65841 0.67 0.999999
Target:  5'- -gGCCagUGGUGAu--GUGGUGCc -3'
miRNA:   3'- ugUGG--AUCACUuuuCACCACGc -5'
28865 3' -42.4 NC_006146.1 + 124114 0.67 0.999999
Target:  5'- cGCAgCUGGUaGAAGAcGUGGcugUGCGg -3'
miRNA:   3'- -UGUgGAUCA-CUUUU-CACC---ACGC- -5'
28865 3' -42.4 NC_006146.1 + 42831 0.66 1
Target:  5'- cGCACCUGcaUGAGGccGGUGGUcuuGCGg -3'
miRNA:   3'- -UGUGGAUc-ACUUU--UCACCA---CGC- -5'
28865 3' -42.4 NC_006146.1 + 6973 0.66 1
Target:  5'- -aGCCUAGagguuacgacagaGggGGGUGGUGUGc -3'
miRNA:   3'- ugUGGAUCa------------CuuUUCACCACGC- -5'
28865 3' -42.4 NC_006146.1 + 161661 0.66 1
Target:  5'- -gGgCUGG-GGAcAGUGGUGCGu -3'
miRNA:   3'- ugUgGAUCaCUUuUCACCACGC- -5'
28865 3' -42.4 NC_006146.1 + 38382 0.66 1
Target:  5'- cCACgUAGUcucu-GUGGUGCGg -3'
miRNA:   3'- uGUGgAUCAcuuuuCACCACGC- -5'
28865 3' -42.4 NC_006146.1 + 114245 0.68 0.999999
Target:  5'- gGCACCUcAGgGAGGgccagcucguAGUGGUGCc -3'
miRNA:   3'- -UGUGGA-UCaCUUU----------UCACCACGc -5'
28865 3' -42.4 NC_006146.1 + 84947 0.68 0.999999
Target:  5'- gGCACCUGGUa-----UGGUGCGu -3'
miRNA:   3'- -UGUGGAUCAcuuuucACCACGC- -5'
28865 3' -42.4 NC_006146.1 + 39985 0.68 0.999999
Target:  5'- cACuCCUAGUGAGuGGGUGGcccgGCa -3'
miRNA:   3'- -UGuGGAUCACUU-UUCACCa---CGc -5'
28865 3' -42.4 NC_006146.1 + 131535 0.75 0.99473
Target:  5'- gGCGCCgAGUGGGAcguuuGGUGGUGgGa -3'
miRNA:   3'- -UGUGGaUCACUUU-----UCACCACgC- -5'
28865 3' -42.4 NC_006146.1 + 81063 0.72 0.999501
Target:  5'- cGCGCCacaaaguguuggGGUGccAAGUGGUGCGu -3'
miRNA:   3'- -UGUGGa-----------UCACuuUUCACCACGC- -5'
28865 3' -42.4 NC_006146.1 + 105753 0.72 0.999627
Target:  5'- cACACCUGGUGA--GGUG-UGCc -3'
miRNA:   3'- -UGUGGAUCACUuuUCACcACGc -5'
28865 3' -42.4 NC_006146.1 + 103838 0.7 0.999928
Target:  5'- -aACCUGG-GAGAAGagGGUGCu -3'
miRNA:   3'- ugUGGAUCaCUUUUCa-CCACGc -5'
28865 3' -42.4 NC_006146.1 + 44829 0.7 0.999961
Target:  5'- uGCGgCUGGUGAcgGAGGUGgGUGUa -3'
miRNA:   3'- -UGUgGAUCACU--UUUCAC-CACGc -5'
28865 3' -42.4 NC_006146.1 + 121553 0.69 0.99999
Target:  5'- -aGCCUaucaucgaGGUGAAAAGUGG-GCc -3'
miRNA:   3'- ugUGGA--------UCACUUUUCACCaCGc -5'
28865 3' -42.4 NC_006146.1 + 116289 0.68 0.999998
Target:  5'- cGCACCgcacgGGUGAAu-GUGGgGCa -3'
miRNA:   3'- -UGUGGa----UCACUUuuCACCaCGc -5'
28865 3' -42.4 NC_006146.1 + 43004 0.68 0.999998
Target:  5'- cCGCCgGGUGAGA---GGUGCGa -3'
miRNA:   3'- uGUGGaUCACUUUucaCCACGC- -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.