miRNA display CGI


Results 1 - 20 of 34 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
13405 3' -56 NC_003409.1 + 11117 0.66 0.892323
Target:  5'- uCAcCGGCGccuGGGCuauGGUAUugGUGCGGCg -3'
miRNA:   3'- -GUuGCCGU---UCCGcg-UCAUG--CACGCCG- -5'
13405 3' -56 NC_003409.1 + 15828 0.66 0.892323
Target:  5'- aCGACaGCucGGGCGCGGcgagccCGUGUGGg -3'
miRNA:   3'- -GUUGcCGu-UCCGCGUCau----GCACGCCg -5'
13405 3' -56 NC_003409.1 + 119793 0.66 0.892323
Target:  5'- -cGCGuGCcAGGCGCcg-GCGUG-GGCg -3'
miRNA:   3'- guUGC-CGuUCCGCGucaUGCACgCCG- -5'
13405 3' -56 NC_003409.1 + 116397 0.66 0.892323
Target:  5'- gGugGGCcAGGUcuagGCGGUGucuuuuuaguUGUGCGGUu -3'
miRNA:   3'- gUugCCGuUCCG----CGUCAU----------GCACGCCG- -5'
13405 3' -56 NC_003409.1 + 101590 0.66 0.892323
Target:  5'- gGugGGU--GGCGCgccGGUGCGguguucUGCGGUg -3'
miRNA:   3'- gUugCCGuuCCGCG---UCAUGC------ACGCCG- -5'
13405 3' -56 NC_003409.1 + 35224 0.66 0.890972
Target:  5'- ---gGGCAGGGUGgAGUACuugaggagccgGCGGUa -3'
miRNA:   3'- guugCCGUUCCGCgUCAUGca---------CGCCG- -5'
13405 3' -56 NC_003409.1 + 93663 0.66 0.885476
Target:  5'- gGGCGGUGgguuguguGGGCgGCGggauGUACGUGCaGCg -3'
miRNA:   3'- gUUGCCGU--------UCCG-CGU----CAUGCACGcCG- -5'
13405 3' -56 NC_003409.1 + 40485 0.66 0.878401
Target:  5'- cCAGCGGac-GGaCGCAacGUACGUGgGGa -3'
miRNA:   3'- -GUUGCCguuCC-GCGU--CAUGCACgCCg -5'
13405 3' -56 NC_003409.1 + 109156 0.66 0.871103
Target:  5'- --cCGGCuGGGaCGCAGgccgggcGCGUGgGGUc -3'
miRNA:   3'- guuGCCGuUCC-GCGUCa------UGCACgCCG- -5'
13405 3' -56 NC_003409.1 + 73986 0.66 0.863587
Target:  5'- uCAACGGC--GGCGgc-UACG-GCGGCa -3'
miRNA:   3'- -GUUGCCGuuCCGCgucAUGCaCGCCG- -5'
13405 3' -56 NC_003409.1 + 67783 0.67 0.855858
Target:  5'- cCGAUGuCAGGucgacgauCGCGGUGgGUGCGGCg -3'
miRNA:   3'- -GUUGCcGUUCc-------GCGUCAUgCACGCCG- -5'
13405 3' -56 NC_003409.1 + 101241 0.67 0.847924
Target:  5'- --cCGGCGuggauaugaAGGUGCAGgcUGaaaaUGCGGCu -3'
miRNA:   3'- guuGCCGU---------UCCGCGUCauGC----ACGCCG- -5'
13405 3' -56 NC_003409.1 + 109849 0.67 0.839791
Target:  5'- -cGCGGCGggAGGCGguG-GCGccCGGCg -3'
miRNA:   3'- guUGCCGU--UCCGCguCaUGCacGCCG- -5'
13405 3' -56 NC_003409.1 + 119861 0.67 0.822956
Target:  5'- aCAAaaGCGGGGCGuUAGUGagggaGUGCGcGCg -3'
miRNA:   3'- -GUUgcCGUUCCGC-GUCAUg----CACGC-CG- -5'
13405 3' -56 NC_003409.1 + 113542 0.68 0.814271
Target:  5'- --uCGcCAaacAGGCGCAGauuUGUGCGGCg -3'
miRNA:   3'- guuGCcGU---UCCGCGUCau-GCACGCCG- -5'
13405 3' -56 NC_003409.1 + 111376 0.68 0.814271
Target:  5'- cCGACGGUugcguGGGCGCcauUACucgaaugacggGUGCGGCc -3'
miRNA:   3'- -GUUGCCGu----UCCGCGuc-AUG-----------CACGCCG- -5'
13405 3' -56 NC_003409.1 + 113849 0.68 0.808978
Target:  5'- gGACGGUGcggauucuGGGCGCcuuucaguggagcuuAGgcCGUGCGGUc -3'
miRNA:   3'- gUUGCCGU--------UCCGCG---------------UCauGCACGCCG- -5'
13405 3' -56 NC_003409.1 + 110956 0.68 0.768493
Target:  5'- gCGACgGGCGaugugcuggGGGUgauauaacggGCAGUGCGUGgGGUa -3'
miRNA:   3'- -GUUG-CCGU---------UCCG----------CGUCAUGCACgCCG- -5'
13405 3' -56 NC_003409.1 + 87179 0.69 0.756039
Target:  5'- cCGGCGG-AGGGCGUGGccgacgcgccacccUGCGUGUGGg -3'
miRNA:   3'- -GUUGCCgUUCCGCGUC--------------AUGCACGCCg -5'
13405 3' -56 NC_003409.1 + 52576 0.69 0.739473
Target:  5'- uGGCGGcCAAGGgGCGGggACGUGgCaGCu -3'
miRNA:   3'- gUUGCC-GUUCCgCGUCa-UGCAC-GcCG- -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.