miRNA display CGI


Results 1 - 20 of 36 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
27420 3' -68.4 NC_005869.1 + 7363 0.68 0.094671
Target:  5'- gGUCCUCgggGGCCaUGaCGCCCUCC-UCCCa -3'
miRNA:   3'- -CAGGGG---CCGG-AC-GCGGGGGGcAGGGg -5'
27420 3' -68.4 NC_005869.1 + 9293 0.66 0.117275
Target:  5'- gGUCCUgguUGGCgCagGCcgGCUCCUCGUCCCCc -3'
miRNA:   3'- -CAGGG---GCCG-Ga-CG--CGGGGGGCAGGGG- -5'
27420 3' -68.4 NC_005869.1 + 9740 0.66 0.120432
Target:  5'- aGUCCUCcuCCUGCuCCuCCUCGUCCCg -3'
miRNA:   3'- -CAGGGGccGGACGcGG-GGGGCAGGGg -5'
27420 3' -68.4 NC_005869.1 + 13094 0.79 0.011177
Target:  5'- -aCCCCGGCCcucucGCGCgUCCCGUCCCg -3'
miRNA:   3'- caGGGGCCGGa----CGCGgGGGGCAGGGg -5'
27420 3' -68.4 NC_005869.1 + 13316 0.72 0.04164
Target:  5'- -gCCgCCGGCCgccgccgccGCGCCUCCCGcUCCUCc -3'
miRNA:   3'- caGG-GGCCGGa--------CGCGGGGGGC-AGGGG- -5'
27420 3' -68.4 NC_005869.1 + 14654 0.69 0.078336
Target:  5'- gGUCCCCGGuCCaGCGUUCCCCGgaugUCa- -3'
miRNA:   3'- -CAGGGGCC-GGaCGCGGGGGGCa---GGgg -5'
27420 3' -68.4 NC_005869.1 + 14879 0.71 0.050395
Target:  5'- cUUCCCGGagaaccagauccuCCUGCGCCCgCCagaGUCCaCCa -3'
miRNA:   3'- cAGGGGCC-------------GGACGCGGG-GGg--CAGG-GG- -5'
27420 3' -68.4 NC_005869.1 + 15207 0.66 0.137432
Target:  5'- cUCCauguaCGGgg-GCGCCCgccgCCUGUCCCCg -3'
miRNA:   3'- cAGGg----GCCggaCGCGGG----GGGCAGGGG- -5'
27420 3' -68.4 NC_005869.1 + 16436 0.66 0.123014
Target:  5'- uGUCCCCucgcacGGCCgucaagcgccggGCGCCCgCCGacgagCCCa -3'
miRNA:   3'- -CAGGGG------CCGGa-----------CGCGGGgGGCa----GGGg -5'
27420 3' -68.4 NC_005869.1 + 16749 0.69 0.080493
Target:  5'- uGUCgCCGcGCCcgaggugcUGCccaGCCuCCCCGUCUCCa -3'
miRNA:   3'- -CAGgGGC-CGG--------ACG---CGG-GGGGCAGGGG- -5'
27420 3' -68.4 NC_005869.1 + 17013 0.67 0.108262
Target:  5'- -aUCCCGGCCagGCaGCCCCgCaCGguaUCCCUg -3'
miRNA:   3'- caGGGGCCGGa-CG-CGGGG-G-GC---AGGGG- -5'
27420 3' -68.4 NC_005869.1 + 17105 0.66 0.117275
Target:  5'- aGUCCU--GCagGCGCCCCCCG-CCCg -3'
miRNA:   3'- -CAGGGgcCGgaCGCGGGGGGCaGGGg -5'
27420 3' -68.4 NC_005869.1 + 17280 0.66 0.136353
Target:  5'- -gCCCCGGCUgaggaGCGCCUCggugggcguccagaCCGcUCCCg -3'
miRNA:   3'- caGGGGCCGGa----CGCGGGG--------------GGC-AGGGg -5'
27420 3' -68.4 NC_005869.1 + 17489 0.69 0.078336
Target:  5'- -gCCCCGcgcgcgccGCgUGCGCCUCgCGcCCCCa -3'
miRNA:   3'- caGGGGC--------CGgACGCGGGGgGCaGGGG- -5'
27420 3' -68.4 NC_005869.1 + 17546 0.66 0.130039
Target:  5'- -aCCCCGGUggcgguggCaGCGCCgCCCGcccgcagcggcggUCCCCc -3'
miRNA:   3'- caGGGGCCG--------GaCGCGGgGGGC-------------AGGGG- -5'
27420 3' -68.4 NC_005869.1 + 18689 0.72 0.040502
Target:  5'- -gCCgUGGCCcacaauaagaUGCGCCCCCCG-CCgCCg -3'
miRNA:   3'- caGGgGCCGG----------ACGCGGGGGGCaGG-GG- -5'
27420 3' -68.4 NC_005869.1 + 21081 0.67 0.097253
Target:  5'- cGUCCCagGGCC-GCuccucCCCCUCGUCCUg -3'
miRNA:   3'- -CAGGGg-CCGGaCGc----GGGGGGCAGGGg -5'
27420 3' -68.4 NC_005869.1 + 21097 0.68 0.092154
Target:  5'- -gCCCUGGgCU-CGCCCUUCGaCCCCu -3'
miRNA:   3'- caGGGGCCgGAcGCGGGGGGCaGGGG- -5'
27420 3' -68.4 NC_005869.1 + 21670 0.69 0.074187
Target:  5'- cUCCCCagcgggGGCCUGCaGCCCCCacaGgggCCgCa -3'
miRNA:   3'- cAGGGG------CCGGACG-CGGGGGg--Ca--GGgG- -5'
27420 3' -68.4 NC_005869.1 + 22536 0.68 0.0897
Target:  5'- cUCCCCGGCCaGCGCCCggCGgaggCCa- -3'
miRNA:   3'- cAGGGGCCGGaCGCGGGggGCa---GGgg -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.