miRNA display CGI


Results 1 - 20 of 45 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
21218 3' -53.2 NC_004778.3 + 94266 0.66 0.970635
Target:  5'- -gCGCGAauuuuCGaACGUGUCUUUGGugugcacCAGCu -3'
miRNA:   3'- agGCGCU-----GC-UGUACAGAAGCCu------GUCG- -5'
21218 3' -53.2 NC_004778.3 + 25426 0.66 0.970635
Target:  5'- gUCCGCGACGACcacaGUCUguUCGuuCAuucuGCa -3'
miRNA:   3'- -AGGCGCUGCUGua--CAGA--AGCcuGU----CG- -5'
21218 3' -53.2 NC_004778.3 + 22377 0.66 0.970635
Target:  5'- cCCGUGGCGuuGggGUCUUCguGGAUGGUu -3'
miRNA:   3'- aGGCGCUGCugUa-CAGAAG--CCUGUCG- -5'
21218 3' -53.2 NC_004778.3 + 104434 0.66 0.967594
Target:  5'- -aUGCGGCGACAUGU--UCGG-CAacucGCa -3'
miRNA:   3'- agGCGCUGCUGUACAgaAGCCuGU----CG- -5'
21218 3' -53.2 NC_004778.3 + 6181 0.66 0.964337
Target:  5'- cUCCGUGGCGACuUGUCg-CGGGucGUa -3'
miRNA:   3'- -AGGCGCUGCUGuACAGaaGCCUguCG- -5'
21218 3' -53.2 NC_004778.3 + 111630 0.66 0.963999
Target:  5'- cUCGCGAccgauauuggauuCGACAUGUUguu-GACAGCa -3'
miRNA:   3'- aGGCGCU-------------GCUGUACAGaagcCUGUCG- -5'
21218 3' -53.2 NC_004778.3 + 98729 0.66 0.960858
Target:  5'- gCCGCGGCcgcaGCGUG-CUUCGuGuuguaGCAGCg -3'
miRNA:   3'- aGGCGCUGc---UGUACaGAAGC-C-----UGUCG- -5'
21218 3' -53.2 NC_004778.3 + 52192 0.66 0.95715
Target:  5'- -aUGCGACGucauCAUGUgCaUCGGACuuGCg -3'
miRNA:   3'- agGCGCUGCu---GUACA-GaAGCCUGu-CG- -5'
21218 3' -53.2 NC_004778.3 + 97048 0.67 0.953209
Target:  5'- cCCGCGACGACGgcgccGUacgCGcAUAGCg -3'
miRNA:   3'- aGGCGCUGCUGUa----CAgaaGCcUGUCG- -5'
21218 3' -53.2 NC_004778.3 + 16312 0.67 0.949032
Target:  5'- aUCCGCGACGcGCAcGUCgc---ACAGCg -3'
miRNA:   3'- -AGGCGCUGC-UGUaCAGaagccUGUCG- -5'
21218 3' -53.2 NC_004778.3 + 35962 0.67 0.949032
Target:  5'- -gUGCGGCG-CcgGg--UCGGGCAGCc -3'
miRNA:   3'- agGCGCUGCuGuaCagaAGCCUGUCG- -5'
21218 3' -53.2 NC_004778.3 + 82628 0.67 0.944614
Target:  5'- gCCGCGcgauaGCGucGCAUGUCgaccaaagCGGACuuGGCg -3'
miRNA:   3'- aGGCGC-----UGC--UGUACAGaa------GCCUG--UCG- -5'
21218 3' -53.2 NC_004778.3 + 49700 0.67 0.944614
Target:  5'- uUCCGCGACGGCAac-UUUUGG-UGGCc -3'
miRNA:   3'- -AGGCGCUGCUGUacaGAAGCCuGUCG- -5'
21218 3' -53.2 NC_004778.3 + 118747 0.67 0.944614
Target:  5'- -gCGCGGCGGCGcacaccaacacgUGccacgCUUCGGGCgcGGCg -3'
miRNA:   3'- agGCGCUGCUGU------------ACa----GAAGCCUG--UCG- -5'
21218 3' -53.2 NC_004778.3 + 65376 0.67 0.935046
Target:  5'- uUUCGCGACGAUuUGaCaggUUCGGAC-GCg -3'
miRNA:   3'- -AGGCGCUGCUGuACaG---AAGCCUGuCG- -5'
21218 3' -53.2 NC_004778.3 + 44013 0.67 0.935046
Target:  5'- cUCC-CGAgcCGGCAccUGUUgccgcgUCGGACGGCc -3'
miRNA:   3'- -AGGcGCU--GCUGU--ACAGa-----AGCCUGUCG- -5'
21218 3' -53.2 NC_004778.3 + 72804 0.67 0.935046
Target:  5'- -gCGCGuuCGAgGUGUUcgggUUGGGCAGCc -3'
miRNA:   3'- agGCGCu-GCUgUACAGa---AGCCUGUCG- -5'
21218 3' -53.2 NC_004778.3 + 108554 0.68 0.924491
Target:  5'- gCCGCGGCaaaaGCGUGg--UCGG-CGGCg -3'
miRNA:   3'- aGGCGCUGc---UGUACagaAGCCuGUCG- -5'
21218 3' -53.2 NC_004778.3 + 9083 0.68 0.912945
Target:  5'- gUCCGuCGACGgagcaaucuACGUGagCUUCGGcucCAGCa -3'
miRNA:   3'- -AGGC-GCUGC---------UGUACa-GAAGCCu--GUCG- -5'
21218 3' -53.2 NC_004778.3 + 85526 0.68 0.912342
Target:  5'- gUuuGCGGCGGCgAUGUCauggacgcgggcgUUUGcGGCGGCg -3'
miRNA:   3'- -AggCGCUGCUG-UACAG-------------AAGC-CUGUCG- -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.