miRNA display CGI


Results 1 - 20 of 28 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
7001 5' -61.9 NC_001875.2 + 84376 0.66 0.636742
Target:  5'- -gCGGCCugCCggGGCGG-CGUCGGUa -3'
miRNA:   3'- caGCCGGugGGa-CUGCCaGUGGCCGa -5'
7001 5' -61.9 NC_001875.2 + 94253 0.66 0.636742
Target:  5'- -gCGGCCGgCCgcGGCGcucgCGCCGGCg -3'
miRNA:   3'- caGCCGGUgGGa-CUGCca--GUGGCCGa -5'
7001 5' -61.9 NC_001875.2 + 47995 0.66 0.636742
Target:  5'- cGUCGaGCCGCCCUGGaaccagaucgUGGUgG-CGGCc -3'
miRNA:   3'- -CAGC-CGGUGGGACU----------GCCAgUgGCCGa -5'
7001 5' -61.9 NC_001875.2 + 53009 0.66 0.616882
Target:  5'- -gCGGCCAgCCUGuCGGUgcccacggacUACgGGCg -3'
miRNA:   3'- caGCCGGUgGGACuGCCA----------GUGgCCGa -5'
7001 5' -61.9 NC_001875.2 + 41124 0.66 0.616882
Target:  5'- cGUCGuGUCGCgCUUGAcCGGcggccgCGCCGGCa -3'
miRNA:   3'- -CAGC-CGGUG-GGACU-GCCa-----GUGGCCGa -5'
7001 5' -61.9 NC_001875.2 + 50170 0.66 0.606965
Target:  5'- -aUGGCCGCCUcuuc-GUCGCCGGCg -3'
miRNA:   3'- caGCCGGUGGGacugcCAGUGGCCGa -5'
7001 5' -61.9 NC_001875.2 + 15907 0.66 0.606965
Target:  5'- -cCGcGCUACUUUGcCGG-CACCGGCa -3'
miRNA:   3'- caGC-CGGUGGGACuGCCaGUGGCCGa -5'
7001 5' -61.9 NC_001875.2 + 1591 0.66 0.597066
Target:  5'- cUCGGCC-CUCUGACGaGUUuguuuaugugcCCGGCa -3'
miRNA:   3'- cAGCCGGuGGGACUGC-CAGu----------GGCCGa -5'
7001 5' -61.9 NC_001875.2 + 14463 0.66 0.591138
Target:  5'- -gCGGCCAgcaagcucggcgccuCCCcGACGGcCAgCCGGCc -3'
miRNA:   3'- caGCCGGU---------------GGGaCUGCCaGU-GGCCGa -5'
7001 5' -61.9 NC_001875.2 + 40087 0.67 0.577347
Target:  5'- --aGGCCGCggcgCUGACGcGcCACUGGCUg -3'
miRNA:   3'- cagCCGGUGg---GACUGC-CaGUGGCCGA- -5'
7001 5' -61.9 NC_001875.2 + 7053 0.67 0.577347
Target:  5'- uGUCGGCCugguuCCgCUG-CGGcgacgcCACCGGCc -3'
miRNA:   3'- -CAGCCGGu----GG-GACuGCCa-----GUGGCCGa -5'
7001 5' -61.9 NC_001875.2 + 91856 0.67 0.5744
Target:  5'- aGUCGGCCACgggcccccagggcgCCUGcUGGUgCGgCGGCg -3'
miRNA:   3'- -CAGCCGGUG--------------GGACuGCCA-GUgGCCGa -5'
7001 5' -61.9 NC_001875.2 + 54003 0.67 0.557774
Target:  5'- gGUCGcGCacgGCCUUGGCGGcgcgcgcgUACCGGCa -3'
miRNA:   3'- -CAGC-CGg--UGGGACUGCCa-------GUGGCCGa -5'
7001 5' -61.9 NC_001875.2 + 114976 0.67 0.557774
Target:  5'- -gCGGUCGCgCUGGCGG-CGCCgauuaacacGGCUa -3'
miRNA:   3'- caGCCGGUGgGACUGCCaGUGG---------CCGA- -5'
7001 5' -61.9 NC_001875.2 + 124705 0.67 0.527834
Target:  5'- uUCGGCCaacgcGCCUggcaagcggcgcgUGGCGGUCAaugUCGGCa -3'
miRNA:   3'- cAGCCGG-----UGGG-------------ACUGCCAGU---GGCCGa -5'
7001 5' -61.9 NC_001875.2 + 92033 0.68 0.519252
Target:  5'- aGUCGGCCGCC--GACGucCACgGGCUg -3'
miRNA:   3'- -CAGCCGGUGGgaCUGCcaGUGgCCGA- -5'
7001 5' -61.9 NC_001875.2 + 102906 0.68 0.508838
Target:  5'- -gCGGCCGgCCguugaagcggaggUGGCGGaUgACCGGCUg -3'
miRNA:   3'- caGCCGGUgGG-------------ACUGCC-AgUGGCCGA- -5'
7001 5' -61.9 NC_001875.2 + 63716 0.68 0.491062
Target:  5'- uGUCGGUCGCggcGACGGcgggcgcuUCGCCGGCg -3'
miRNA:   3'- -CAGCCGGUGggaCUGCC--------AGUGGCCGa -5'
7001 5' -61.9 NC_001875.2 + 18174 0.68 0.463603
Target:  5'- -aCGccGCCACUgUGGCGGU-GCCGGCg -3'
miRNA:   3'- caGC--CGGUGGgACUGCCAgUGGCCGa -5'
7001 5' -61.9 NC_001875.2 + 19949 0.69 0.428288
Target:  5'- -gCGGCCGgCgC-GACGGUCcgGCCGGCg -3'
miRNA:   3'- caGCCGGUgG-GaCUGCCAG--UGGCCGa -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.