miRNA display CGI


Results 1 - 19 of 19 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
7262 5' -53.5 NC_001900.1 + 3997 0.66 0.781066
Target:  5'- cACCGuCUCgGUGGUCgAGCCagGCAAGg -3'
miRNA:   3'- cUGGU-GAG-CGCCAGaUUGGa-CGUUCg -5'
7262 5' -53.5 NC_001900.1 + 1356 0.66 0.781066
Target:  5'- aACgCGCUgGCGGUCgccGCCcGCGaccAGCa -3'
miRNA:   3'- cUG-GUGAgCGCCAGau-UGGaCGU---UCG- -5'
7262 5' -53.5 NC_001900.1 + 18501 0.66 0.770779
Target:  5'- aGGCC-CUgGCGG-CUGAgCUGUcucAGGCg -3'
miRNA:   3'- -CUGGuGAgCGCCaGAUUgGACG---UUCG- -5'
7262 5' -53.5 NC_001900.1 + 6635 0.66 0.760341
Target:  5'- gGGCCAgcccgaucccCUCG-GGcCUGGCCUGCcuGCc -3'
miRNA:   3'- -CUGGU----------GAGCgCCaGAUUGGACGuuCG- -5'
7262 5' -53.5 NC_001900.1 + 23074 0.66 0.749765
Target:  5'- cGCC-CUUGgGGUUgaugccgagGGCCUGCAgcAGCa -3'
miRNA:   3'- cUGGuGAGCgCCAGa--------UUGGACGU--UCG- -5'
7262 5' -53.5 NC_001900.1 + 48655 0.66 0.749765
Target:  5'- cGGCCGCUaGUGGguugcgUCUGGCCUGCcacacguGCc -3'
miRNA:   3'- -CUGGUGAgCGCC------AGAUUGGACGuu-----CG- -5'
7262 5' -53.5 NC_001900.1 + 37463 0.67 0.728248
Target:  5'- aGCUGCUUGCGGUCaucgaacggGAUCUGCGuGUc -3'
miRNA:   3'- cUGGUGAGCGCCAGa--------UUGGACGUuCG- -5'
7262 5' -53.5 NC_001900.1 + 25737 0.67 0.717332
Target:  5'- uGCCGCcucacgUCGCGGcgaUGAUCcGCGAGCa -3'
miRNA:   3'- cUGGUG------AGCGCCag-AUUGGaCGUUCG- -5'
7262 5' -53.5 NC_001900.1 + 1846 0.67 0.706327
Target:  5'- aGCCGggUGaCGGcCUcGGCCUGCGGGCg -3'
miRNA:   3'- cUGGUgaGC-GCCaGA-UUGGACGUUCG- -5'
7262 5' -53.5 NC_001900.1 + 3699 0.67 0.6841
Target:  5'- uGACCAaCUgCuCGGUCagcGGCUUGCGGGCg -3'
miRNA:   3'- -CUGGU-GA-GcGCCAGa--UUGGACGUUCG- -5'
7262 5' -53.5 NC_001900.1 + 4206 0.67 0.6841
Target:  5'- cGGCCGCuUCGcCGGUCggcagaugAACCaacUGCcAGCg -3'
miRNA:   3'- -CUGGUG-AGC-GCCAGa-------UUGG---ACGuUCG- -5'
7262 5' -53.5 NC_001900.1 + 12585 0.69 0.60526
Target:  5'- uGGCC-UUgGUGGUCUGACCgaUGUAGGUc -3'
miRNA:   3'- -CUGGuGAgCGCCAGAUUGG--ACGUUCG- -5'
7262 5' -53.5 NC_001900.1 + 15881 0.69 0.594011
Target:  5'- cGACCACggcuUCGCGGgccuUCUGGCCcaGCuucAGCa -3'
miRNA:   3'- -CUGGUG----AGCGCC----AGAUUGGa-CGu--UCG- -5'
7262 5' -53.5 NC_001900.1 + 2589 0.71 0.484785
Target:  5'- aGAUCGCUUGCaGGUUaGACC-GCGAGUg -3'
miRNA:   3'- -CUGGUGAGCG-CCAGaUUGGaCGUUCG- -5'
7262 5' -53.5 NC_001900.1 + 4818 0.72 0.433805
Target:  5'- cGACUGCUCG-GGUCUggUuCUGCAgacGGCa -3'
miRNA:   3'- -CUGGUGAGCgCCAGAuuG-GACGU---UCG- -5'
7262 5' -53.5 NC_001900.1 + 43094 0.76 0.251387
Target:  5'- aGCCGCUUGCGGcCUGGCCgGUucAGCa -3'
miRNA:   3'- cUGGUGAGCGCCaGAUUGGaCGu-UCG- -5'
7262 5' -53.5 NC_001900.1 + 47001 0.76 0.232074
Target:  5'- aGACCGCU-GCGGUCUGaACCcuggUGUAGGCc -3'
miRNA:   3'- -CUGGUGAgCGCCAGAU-UGG----ACGUUCG- -5'
7262 5' -53.5 NC_001900.1 + 47064 0.81 0.122209
Target:  5'- aGACCGCa-GCGGUCU-ACCUGCAcGCa -3'
miRNA:   3'- -CUGGUGagCGCCAGAuUGGACGUuCG- -5'
7262 5' -53.5 NC_001900.1 + 2510 1.13 0.000644
Target:  5'- cGACCACUCGCGGUCUAACCUGCAAGCg -3'
miRNA:   3'- -CUGGUGAGCGCCAGAUUGGACGUUCG- -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.