miRNA display CGI


Results 1 - 20 of 29 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
10579 3' -59.9 NC_002687.1 + 312879 1.07 0.003975
Target:  5'- uACCGCCGCGACUCCCUGCUCAACGGAc -3'
miRNA:   3'- -UGGCGGCGCUGAGGGACGAGUUGCCU- -5'
10579 3' -59.9 NC_002687.1 + 308885 0.74 0.469578
Target:  5'- --aGCgGgGGCUCCCUGCUCGGcCGGGg -3'
miRNA:   3'- uggCGgCgCUGAGGGACGAGUU-GCCU- -5'
10579 3' -59.9 NC_002687.1 + 6370 0.74 0.504822
Target:  5'- gACCGCUGCGAgacaugagCCUUGCugUCAGCGGAu -3'
miRNA:   3'- -UGGCGGCGCUga------GGGACG--AGUUGCCU- -5'
10579 3' -59.9 NC_002687.1 + 214896 0.73 0.568974
Target:  5'- cGCCGCCGCcucUUUCCUGUaCGGCGGAa -3'
miRNA:   3'- -UGGCGGCGcu-GAGGGACGaGUUGCCU- -5'
10579 3' -59.9 NC_002687.1 + 167890 0.71 0.644417
Target:  5'- cGuuGCCGCGaaGCUUCCgcgGCgCAACGGAu -3'
miRNA:   3'- -UggCGGCGC--UGAGGGa--CGaGUUGCCU- -5'
10579 3' -59.9 NC_002687.1 + 71951 0.7 0.71007
Target:  5'- cGCCGCCGgaGAUUCUCucgUGCUUGACGGc -3'
miRNA:   3'- -UGGCGGCg-CUGAGGG---ACGAGUUGCCu -5'
10579 3' -59.9 NC_002687.1 + 273792 0.7 0.71007
Target:  5'- cAUUGCCGUuGCUUCCUGUaucucaguauuuUCAGCGGAg -3'
miRNA:   3'- -UGGCGGCGcUGAGGGACG------------AGUUGCCU- -5'
10579 3' -59.9 NC_002687.1 + 200243 0.7 0.728425
Target:  5'- gACCG-CGCGGCUCUUgcggUGCUCAAUGuGAa -3'
miRNA:   3'- -UGGCgGCGCUGAGGG----ACGAGUUGC-CU- -5'
10579 3' -59.9 NC_002687.1 + 5546 0.7 0.737499
Target:  5'- gACCGCUGCGAgacaugagUCUUGCugUCAGCGGAu -3'
miRNA:   3'- -UGGCGGCGCUga------GGGACG--AGUUGCCU- -5'
10579 3' -59.9 NC_002687.1 + 79922 0.7 0.737499
Target:  5'- cGCUaCCG-GAgUCCCUGCUgAACGGGa -3'
miRNA:   3'- -UGGcGGCgCUgAGGGACGAgUUGCCU- -5'
10579 3' -59.9 NC_002687.1 + 19967 0.69 0.746495
Target:  5'- cACUGCgGUG-CUaCCCauuUGCUCAACGGGg -3'
miRNA:   3'- -UGGCGgCGCuGA-GGG---ACGAGUUGCCU- -5'
10579 3' -59.9 NC_002687.1 + 195802 0.69 0.746495
Target:  5'- cACUGCgGUG-CUaCCCauuUGCUCAACGGGg -3'
miRNA:   3'- -UGGCGgCGCuGA-GGG---ACGAGUUGCCU- -5'
10579 3' -59.9 NC_002687.1 + 221393 0.69 0.746495
Target:  5'- cACUGCgGUG-CUaCCCauuUGCUCAACGGGg -3'
miRNA:   3'- -UGGCGgCGCuGA-GGG---ACGAGUUGCCU- -5'
10579 3' -59.9 NC_002687.1 + 9017 0.69 0.761587
Target:  5'- cCCGCUGCGGgcauguggauuauuCUCCCUGUUCccccCGGGa -3'
miRNA:   3'- uGGCGGCGCU--------------GAGGGACGAGuu--GCCU- -5'
10579 3' -59.9 NC_002687.1 + 11857 0.69 0.772938
Target:  5'- aGCCGCCGCuGCUacgaccgcuacCCCUGCUaCAACa-- -3'
miRNA:   3'- -UGGCGGCGcUGA-----------GGGACGA-GUUGccu -5'
10579 3' -59.9 NC_002687.1 + 12530 0.69 0.772938
Target:  5'- uGCCGCUGCuGCUCCUucUGCcgaGAUGGAg -3'
miRNA:   3'- -UGGCGGCGcUGAGGG--ACGag-UUGCCU- -5'
10579 3' -59.9 NC_002687.1 + 253760 0.69 0.781547
Target:  5'- gACCGCCGUu-CUCCCUGC-CGGCc-- -3'
miRNA:   3'- -UGGCGGCGcuGAGGGACGaGUUGccu -5'
10579 3' -59.9 NC_002687.1 + 316178 0.68 0.806657
Target:  5'- uGCgGCgGCGGCaCCCgGCgCGGCGGAa -3'
miRNA:   3'- -UGgCGgCGCUGaGGGaCGaGUUGCCU- -5'
10579 3' -59.9 NC_002687.1 + 296381 0.68 0.814766
Target:  5'- cACCGCgccuUGCagGACUCCggUGCUCGAUGGAc -3'
miRNA:   3'- -UGGCG----GCG--CUGAGGg-ACGAGUUGCCU- -5'
10579 3' -59.9 NC_002687.1 + 66620 0.68 0.814766
Target:  5'- gACCGCCaUGGCccCCCUGUaCGACGGu -3'
miRNA:   3'- -UGGCGGcGCUGa-GGGACGaGUUGCCu -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.