miRNA display CGI


Results 1 - 20 of 35 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
11332 3' -55.5 NC_003084.1 + 81832 0.66 0.87903
Target:  5'- -------aGCAACAUUCG-GCGCUGCa -3'
miRNA:   3'- ccaacggaCGUUGUGAGCuCGCGGCG- -5'
11332 3' -55.5 NC_003084.1 + 71694 0.66 0.871632
Target:  5'- uGUUGCCagcgaauaUGCAGCucaUCGAcaucuaauucgGCGCUGCc -3'
miRNA:   3'- cCAACGG--------ACGUUGug-AGCU-----------CGCGGCG- -5'
11332 3' -55.5 NC_003084.1 + 54374 0.66 0.871632
Target:  5'- uGGUgcgaCUuuGGCACUUGAGCuGCCGUa -3'
miRNA:   3'- -CCAacg-GAcgUUGUGAGCUCG-CGGCG- -5'
11332 3' -55.5 NC_003084.1 + 61738 0.66 0.87088
Target:  5'- -uUUGCCUGCAuaauuGCACUCcaagugcGAGaCGguCCGCu -3'
miRNA:   3'- ccAACGGACGU-----UGUGAG-------CUC-GC--GGCG- -5'
11332 3' -55.5 NC_003084.1 + 42838 0.66 0.864009
Target:  5'- ---cGCCaUGUcuCACUCGAGCGa-GCa -3'
miRNA:   3'- ccaaCGG-ACGuuGUGAGCUCGCggCG- -5'
11332 3' -55.5 NC_003084.1 + 47020 0.66 0.864009
Target:  5'- cGUUGCagugGCAucgcaagguGCACUUGAGCGgUGUu -3'
miRNA:   3'- cCAACGga--CGU---------UGUGAGCUCGCgGCG- -5'
11332 3' -55.5 NC_003084.1 + 38318 0.66 0.864009
Target:  5'- ---gGCUUGCAaucgauuccgcaGCAgUCG-GCGUCGCa -3'
miRNA:   3'- ccaaCGGACGU------------UGUgAGCuCGCGGCG- -5'
11332 3' -55.5 NC_003084.1 + 3575 0.66 0.856166
Target:  5'- ----aCCUaGCuGCACUgGuGCGCCGCu -3'
miRNA:   3'- ccaacGGA-CGuUGUGAgCuCGCGGCG- -5'
11332 3' -55.5 NC_003084.1 + 173 0.66 0.853771
Target:  5'- ---gGCCUGCAugGgacuauaauccccgUUCGAGCgggGCUGCa -3'
miRNA:   3'- ccaaCGGACGUugU--------------GAGCUCG---CGGCG- -5'
11332 3' -55.5 NC_003084.1 + 65290 0.66 0.848111
Target:  5'- cGGcgGCUUGCAGCA-UCGGGauguaCCGCa -3'
miRNA:   3'- -CCaaCGGACGUUGUgAGCUCgc---GGCG- -5'
11332 3' -55.5 NC_003084.1 + 76579 0.66 0.848111
Target:  5'- ---cGuCCaGCAGCGCUCGGGUgaugaaGCUGCu -3'
miRNA:   3'- ccaaC-GGaCGUUGUGAGCUCG------CGGCG- -5'
11332 3' -55.5 NC_003084.1 + 96173 0.67 0.839849
Target:  5'- ---cGCCUGguGCgGCUauucgagagcgaCGAGCGCaCGCu -3'
miRNA:   3'- ccaaCGGACguUG-UGA------------GCUCGCG-GCG- -5'
11332 3' -55.5 NC_003084.1 + 62341 0.67 0.82274
Target:  5'- aGGUggGUUUGCGuuuACGCUUGAGCaGCUuGCg -3'
miRNA:   3'- -CCAa-CGGACGU---UGUGAGCUCG-CGG-CG- -5'
11332 3' -55.5 NC_003084.1 + 18505 0.67 0.82274
Target:  5'- aGUUGuUCUGCgAACcCUCGGGCGCUuCa -3'
miRNA:   3'- cCAAC-GGACG-UUGuGAGCUCGCGGcG- -5'
11332 3' -55.5 NC_003084.1 + 73075 0.67 0.82274
Target:  5'- cGUUGCC-GCGA----CGGGCGCUGCu -3'
miRNA:   3'- cCAACGGaCGUUgugaGCUCGCGGCG- -5'
11332 3' -55.5 NC_003084.1 + 105575 0.68 0.786411
Target:  5'- --cUGCUUGUAGCGCUUG-GCGuuGg -3'
miRNA:   3'- ccaACGGACGUUGUGAGCuCGCggCg -5'
11332 3' -55.5 NC_003084.1 + 1045 0.68 0.786411
Target:  5'- --cUGCUUGUAGCGCUUG-GCGuuGg -3'
miRNA:   3'- ccaACGGACGUUGUGAGCuCGCggCg -5'
11332 3' -55.5 NC_003084.1 + 31959 0.68 0.776941
Target:  5'- aGUUGCCggacucgguugGCAcCACcgCGGGCucgGCCGCa -3'
miRNA:   3'- cCAACGGa----------CGUuGUGa-GCUCG---CGGCG- -5'
11332 3' -55.5 NC_003084.1 + 86191 0.68 0.767335
Target:  5'- ---aGUUUGCuACAgUUGAGCGCCGa -3'
miRNA:   3'- ccaaCGGACGuUGUgAGCUCGCGGCg -5'
11332 3' -55.5 NC_003084.1 + 27683 0.68 0.757603
Target:  5'- cGGgUGCCgaugaUGUAGCGCUC-AGaGCCGCu -3'
miRNA:   3'- -CCaACGG-----ACGUUGUGAGcUCgCGGCG- -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.