miRNA display CGI


Results 1 - 18 of 18 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
123 3' -55.7 AC_000006.1 + 14844 0.66 0.559224
Target:  5'- -gGUGUAGCUGCGGAugagcuGGGAguagaCG-GCGa -3'
miRNA:   3'- cgCACGUCGACGUCU------UCCU-----GCaCGCg -5'
123 3' -55.7 AC_000006.1 + 15581 0.66 0.559224
Target:  5'- aCGUGUacuGGgUGCGcGAcuccgucacGGGCGUGCGCg -3'
miRNA:   3'- cGCACG---UCgACGU-CUu--------CCUGCACGCG- -5'
123 3' -55.7 AC_000006.1 + 21899 0.66 0.548079
Target:  5'- cGCGcGCuGCUGCGuGcAGGAUGccggGUGCg -3'
miRNA:   3'- -CGCaCGuCGACGU-CuUCCUGCa---CGCG- -5'
123 3' -55.7 AC_000006.1 + 15215 0.66 0.548079
Target:  5'- cGCGgaaGUGGCcGCGGAcgcGGACGggGUGCu -3'
miRNA:   3'- -CGCa--CGUCGaCGUCUu--CCUGCa-CGCG- -5'
123 3' -55.7 AC_000006.1 + 8354 0.66 0.537005
Target:  5'- cGCGgGCaggGGCgGCAGAGGcacgucGGCGUGgCGCu -3'
miRNA:   3'- -CGCaCG---UCGaCGUCUUC------CUGCAC-GCG- -5'
123 3' -55.7 AC_000006.1 + 6746 0.66 0.537005
Target:  5'- gGCGUGgGGCaaGCGGAccgagucgcGGAUgaaGUGCGCg -3'
miRNA:   3'- -CGCACgUCGa-CGUCUu--------CCUG---CACGCG- -5'
123 3' -55.7 AC_000006.1 + 16638 0.67 0.493566
Target:  5'- gGCGggggGCAGacgGCGGcGGGugGcgGUGCg -3'
miRNA:   3'- -CGCa---CGUCga-CGUCuUCCugCa-CGCG- -5'
123 3' -55.7 AC_000006.1 + 10838 0.67 0.472454
Target:  5'- gGCGcacguccuucUGCAGCUGCAcgcGGGgGUGuCGCu -3'
miRNA:   3'- -CGC----------ACGUCGACGUcuuCCUgCAC-GCG- -5'
123 3' -55.7 AC_000006.1 + 20628 0.67 0.472454
Target:  5'- gGUG-GUGGCguuuccgGCGGAGaacGGCGUGCGCa -3'
miRNA:   3'- -CGCaCGUCGa------CGUCUUc--CUGCACGCG- -5'
123 3' -55.7 AC_000006.1 + 9962 0.68 0.442678
Target:  5'- uGCGgcgGCGGCUgGCGGugagcggccagcgcuGGGugGccgGCGCg -3'
miRNA:   3'- -CGCa--CGUCGA-CGUCu--------------UCCugCa--CGCG- -5'
123 3' -55.7 AC_000006.1 + 14197 0.68 0.44167
Target:  5'- aCGUGguGCUGCuGccGGGC-UGCGg -3'
miRNA:   3'- cGCACguCGACGuCuuCCUGcACGCg -5'
123 3' -55.7 AC_000006.1 + 10884 0.68 0.438654
Target:  5'- gGCGggcagGgAGCUGCGcGAGGGccuggaccgccagcGCGUGCuGCg -3'
miRNA:   3'- -CGCa----CgUCGACGU-CUUCC--------------UGCACG-CG- -5'
123 3' -55.7 AC_000006.1 + 33289 0.7 0.339407
Target:  5'- aGCG-GCAGCaGCGaAAGGACG-GcCGCa -3'
miRNA:   3'- -CGCaCGUCGaCGUcUUCCUGCaC-GCG- -5'
123 3' -55.7 AC_000006.1 + 15485 0.71 0.291312
Target:  5'- uGCGUcuggcGCGGCgcaGCAGAGcucGGGCG-GCGCc -3'
miRNA:   3'- -CGCA-----CGUCGa--CGUCUU---CCUGCaCGCG- -5'
123 3' -55.7 AC_000006.1 + 17675 0.71 0.290558
Target:  5'- aGCGUGCucugccaguucugGGCcuggcgGCGGGcgGGGACGcgGCGCa -3'
miRNA:   3'- -CGCACG-------------UCGa-----CGUCU--UCCUGCa-CGCG- -5'
123 3' -55.7 AC_000006.1 + 7045 0.74 0.179012
Target:  5'- uUGUGCGGCcuUGCGGAGcGAgGUGUGCg -3'
miRNA:   3'- cGCACGUCG--ACGUCUUcCUgCACGCG- -5'
123 3' -55.7 AC_000006.1 + 12076 0.83 0.044191
Target:  5'- aCGUGCAguccaaccuggaccgGCUGguGAcGGACGUGCGCg -3'
miRNA:   3'- cGCACGU---------------CGACguCUuCCUGCACGCG- -5'
123 3' -55.7 AC_000006.1 + 10777 1.13 0.000239
Target:  5'- cGCGUGCAGCUGCAGAAGGACGUGCGCc -3'
miRNA:   3'- -CGCACGUCGACGUCUUCCUGCACGCG- -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.