miRNA display CGI


Results 1 - 20 of 25 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
92 3' -59.6 AC_000006.1 + 31295 0.68 0.242007
Target:  5'- -cAGGGCuuccAGCU-CG-GCCAgcAGGGCCa -3'
miRNA:   3'- guUCCCGu---UCGAgGCgCGGU--UCCCGG- -5'
92 3' -59.6 AC_000006.1 + 30494 0.67 0.275603
Target:  5'- gCGAGGGgAA-CUUCGC-CCcGGGGCCc -3'
miRNA:   3'- -GUUCCCgUUcGAGGCGcGGuUCCCGG- -5'
92 3' -59.6 AC_000006.1 + 29765 1.11 0.000115
Target:  5'- cCAAGGGCAAGCUCCGCGCCAAGGGCCa -3'
miRNA:   3'- -GUUCCCGUUCGAGGCGCGGUUCCCGG- -5'
92 3' -59.6 AC_000006.1 + 22635 0.66 0.36236
Target:  5'- gAGGGGCuccucucguGCUCCggcggauagcGCGCCGacccguggccccGGGGCg -3'
miRNA:   3'- gUUCCCGuu-------CGAGG----------CGCGGU------------UCCCGg -5'
92 3' -59.6 AC_000006.1 + 21282 0.7 0.185565
Target:  5'- aAGGGGUucucGCgcucaucguugugcgCCGCGCUgggGAGGGCCa -3'
miRNA:   3'- gUUCCCGuu--CGa--------------GGCGCGG---UUCCCGG- -5'
92 3' -59.6 AC_000006.1 + 20401 0.66 0.318331
Target:  5'- ---cGGCAGcgaccaguagacuuGCUCCGCGCCGcaggugacguccGGGGUg -3'
miRNA:   3'- guucCCGUU--------------CGAGGCGCGGU------------UCCCGg -5'
92 3' -59.6 AC_000006.1 + 20317 0.79 0.040228
Target:  5'- gAAGGGCAugAGCUCgGCGCCGaccacGGGGUa -3'
miRNA:   3'- gUUCCCGU--UCGAGgCGCGGU-----UCCCGg -5'
92 3' -59.6 AC_000006.1 + 20215 0.69 0.217065
Target:  5'- --cGGGCuucaccGGCUaCCuugcacccaccauGCGCCAAGGGCa -3'
miRNA:   3'- guuCCCGu-----UCGA-GG-------------CGCGGUUCCCGg -5'
92 3' -59.6 AC_000006.1 + 19659 0.7 0.185059
Target:  5'- --cGGGCGuGCUCCgaaugGCGCCu-GGGCg -3'
miRNA:   3'- guuCCCGUuCGAGG-----CGCGGuuCCCGg -5'
92 3' -59.6 AC_000006.1 + 16924 0.67 0.275603
Target:  5'- uGGGGGCAAgGCUguuguaagCCGUGCCcgaguAGGGUUu -3'
miRNA:   3'- gUUCCCGUU-CGA--------GGCGCGGu----UCCCGG- -5'
92 3' -59.6 AC_000006.1 + 15412 0.73 0.118056
Target:  5'- -uGGGGCGccgcccgAGCUcugcugcgCCGCGCCAGacgcacGGGCCg -3'
miRNA:   3'- guUCCCGU-------UCGA--------GGCGCGGUU------CCCGG- -5'
92 3' -59.6 AC_000006.1 + 13129 0.73 0.11507
Target:  5'- -cAGGGUGAGCcggCCGCGCUugcuGGGCg -3'
miRNA:   3'- guUCCCGUUCGa--GGCGCGGuu--CCCGg -5'
92 3' -59.6 AC_000006.1 + 13027 0.66 0.353738
Target:  5'- cCAGGaGGCGGuGCgcacgcCCGCGagCGAGGGCg -3'
miRNA:   3'- -GUUC-CCGUU-CGa-----GGCGCg-GUUCCCGg -5'
92 3' -59.6 AC_000006.1 + 12364 0.69 0.211893
Target:  5'- gCGAGaGGCca-CUCCGC-CCcGGGGCCa -3'
miRNA:   3'- -GUUC-CCGuucGAGGCGcGGuUCCCGG- -5'
92 3' -59.6 AC_000006.1 + 12041 0.68 0.261736
Target:  5'- gGGGGGUuucGCUCCGgucgGCCAGGGcGUCc -3'
miRNA:   3'- gUUCCCGuu-CGAGGCg---CGGUUCC-CGG- -5'
92 3' -59.6 AC_000006.1 + 10961 0.67 0.275603
Target:  5'- -cGGGGaucAGCcCCGCGCCGcgcacguggcGGcGGCCa -3'
miRNA:   3'- guUCCCgu-UCGaGGCGCGGU----------UC-CCGG- -5'
92 3' -59.6 AC_000006.1 + 10882 0.74 0.09147
Target:  5'- --cGGGCGGGCagggagCUGCG-CGAGGGCCu -3'
miRNA:   3'- guuCCCGUUCGa-----GGCGCgGUUCCCGG- -5'
92 3' -59.6 AC_000006.1 + 10445 0.72 0.128903
Target:  5'- --uGGGCGAGgaUCGCGCCcuGGGUg -3'
miRNA:   3'- guuCCCGUUCgaGGCGCGGuuCCCGg -5'
92 3' -59.6 AC_000006.1 + 9980 0.68 0.244564
Target:  5'- uGAGcGGCcAGCgcuggguggccggCGCGCCcGGGGCCa -3'
miRNA:   3'- gUUC-CCGuUCGag-----------GCGCGGuUCCCGG- -5'
92 3' -59.6 AC_000006.1 + 8899 0.67 0.275603
Target:  5'- gCAGGGGCAucucGCUgaUGuCGCCGAuGGCCu -3'
miRNA:   3'- -GUUCCCGUu---CGAg-GC-GCGGUUcCCGG- -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.