miRNA display CGI


Results 1 - 20 of 39 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
11942 3' -58 NC_003278.1 + 36 1.08 0.000296
Target:  5'- aUGAGCCGAUGCGGCCAGGAAACGCCAu -3'
miRNA:   3'- -ACUCGGCUACGCCGGUCCUUUGCGGU- -5'
11942 3' -58 NC_003278.1 + 13395 0.82 0.031459
Target:  5'- cGGGCCGAUGgUGGCCAGGuaGAGCGUCGc -3'
miRNA:   3'- aCUCGGCUAC-GCCGGUCC--UUUGCGGU- -5'
11942 3' -58 NC_003278.1 + 8806 0.77 0.074471
Target:  5'- --cGCCGAggGCGGCCAGGGucuucgggccagcGAUGCCAu -3'
miRNA:   3'- acuCGGCUa-CGCCGGUCCU-------------UUGCGGU- -5'
11942 3' -58 NC_003278.1 + 18991 0.77 0.079212
Target:  5'- -cGGCCGAccuccuugccUGCGGCCAGGugauCGCCGg -3'
miRNA:   3'- acUCGGCU----------ACGCCGGUCCuuu-GCGGU- -5'
11942 3' -58 NC_003278.1 + 20033 0.76 0.094398
Target:  5'- uUGuAGCCGGUGCGGcCCAGGAAGuacugGCCc -3'
miRNA:   3'- -AC-UCGGCUACGCC-GGUCCUUUg----CGGu -5'
11942 3' -58 NC_003278.1 + 29209 0.73 0.141162
Target:  5'- -aGGUCGcgGCGGCCAGcgaguucaaGAAGCGCCu -3'
miRNA:   3'- acUCGGCuaCGCCGGUC---------CUUUGCGGu -5'
11942 3' -58 NC_003278.1 + 7022 0.72 0.181611
Target:  5'- cGAGCCGgcGgGGCgCGGGguACGCUc -3'
miRNA:   3'- aCUCGGCuaCgCCG-GUCCuuUGCGGu -5'
11942 3' -58 NC_003278.1 + 32327 0.71 0.214004
Target:  5'- -cAGCgGcAUGCGGCCgAGGAuguCGCCGa -3'
miRNA:   3'- acUCGgC-UACGCCGG-UCCUuu-GCGGU- -5'
11942 3' -58 NC_003278.1 + 4798 0.7 0.219863
Target:  5'- gGAGUCGGUGaUGGCCAGGc--CGaCCAa -3'
miRNA:   3'- aCUCGGCUAC-GCCGGUCCuuuGC-GGU- -5'
11942 3' -58 NC_003278.1 + 19171 0.7 0.225857
Target:  5'- aGAGCCGGUccauaugguccgGCGcCCAGuGAAACGUCAc -3'
miRNA:   3'- aCUCGGCUA------------CGCcGGUC-CUUUGCGGU- -5'
11942 3' -58 NC_003278.1 + 33211 0.7 0.238263
Target:  5'- --cGCCGGcUGCGGCCgAGGccauCGCCGg -3'
miRNA:   3'- acuCGGCU-ACGCCGG-UCCuuu-GCGGU- -5'
11942 3' -58 NC_003278.1 + 26665 0.7 0.251233
Target:  5'- cGGGCgGcgGCGcauucgcguccGCCAGGGuaGGCGCCGa -3'
miRNA:   3'- aCUCGgCuaCGC-----------CGGUCCU--UUGCGGU- -5'
11942 3' -58 NC_003278.1 + 26381 0.7 0.251233
Target:  5'- aUGGGCCGAaagaaaCGGCCuAGGAGaaagcaccgucuACGCCGu -3'
miRNA:   3'- -ACUCGGCUac----GCCGG-UCCUU------------UGCGGU- -5'
11942 3' -58 NC_003278.1 + 31544 0.69 0.271773
Target:  5'- -uGGCCaaccugGCGGCCAGGaAAACGCa- -3'
miRNA:   3'- acUCGGcua---CGCCGGUCC-UUUGCGgu -5'
11942 3' -58 NC_003278.1 + 22341 0.68 0.29364
Target:  5'- cGAGCCGAgcagaucggUGCGGCCGucgucGAuGCGCUu -3'
miRNA:   3'- aCUCGGCU---------ACGCCGGUc----CUuUGCGGu -5'
11942 3' -58 NC_003278.1 + 23477 0.68 0.301228
Target:  5'- --cGCCGGUGUcgucGGCCAGGu--CGCUg -3'
miRNA:   3'- acuCGGCUACG----CCGGUCCuuuGCGGu -5'
11942 3' -58 NC_003278.1 + 28343 0.68 0.308967
Target:  5'- --cGCUGAagaaagGCGGCUAcuGGGAACGCCu -3'
miRNA:   3'- acuCGGCUa-----CGCCGGU--CCUUUGCGGu -5'
11942 3' -58 NC_003278.1 + 28264 0.68 0.324896
Target:  5'- cGGGCCGAgGCGGC-GGGuuccuugucGGugGCCGg -3'
miRNA:   3'- aCUCGGCUaCGCCGgUCC---------UUugCGGU- -5'
11942 3' -58 NC_003278.1 + 7879 0.67 0.341428
Target:  5'- gGGGCCGugguCGGCCAGGccgugguuCGCCu -3'
miRNA:   3'- aCUCGGCuac-GCCGGUCCuuu-----GCGGu -5'
11942 3' -58 NC_003278.1 + 7252 0.67 0.341428
Target:  5'- uUGAGaaGAUcGCGGCCGGcu-AUGCCGa -3'
miRNA:   3'- -ACUCggCUA-CGCCGGUCcuuUGCGGU- -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.