miRNA display CGI


Results 1 - 16 of 16 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
13380 5' -57.9 NC_003409.1 + 105192 0.66 0.841703
Target:  5'- -gGGCGGugGCucucuGUCAGgccgugcUGGGGGAUu- -3'
miRNA:   3'- ggCCGUCugCG-----CAGUU-------ACCCCCUGca -5'
13380 5' -57.9 NC_003409.1 + 73974 0.66 0.826225
Target:  5'- uCgGGgGGugGUGUCGAaGaGGGGGCa- -3'
miRNA:   3'- -GgCCgUCugCGCAGUUaC-CCCCUGca -5'
13380 5' -57.9 NC_003409.1 + 96870 0.66 0.817828
Target:  5'- uCUGGCGGAgGCGUgcCAaauAUGGGaGGAaCGa -3'
miRNA:   3'- -GGCCGUCUgCGCA--GU---UACCC-CCU-GCa -5'
13380 5' -57.9 NC_003409.1 + 26696 0.67 0.809269
Target:  5'- -aGGCGGGauaGCGaCAGUaGGGcGGACGg -3'
miRNA:   3'- ggCCGUCUg--CGCaGUUA-CCC-CCUGCa -5'
13380 5' -57.9 NC_003409.1 + 117545 0.67 0.809269
Target:  5'- uUCGGCAGACGCca-AGUGGuGGAUa- -3'
miRNA:   3'- -GGCCGUCUGCGcagUUACCcCCUGca -5'
13380 5' -57.9 NC_003409.1 + 82976 0.67 0.791693
Target:  5'- aCGGUuG-UGCGcCAcgGGGGGugGUu -3'
miRNA:   3'- gGCCGuCuGCGCaGUuaCCCCCugCA- -5'
13380 5' -57.9 NC_003409.1 + 110975 0.68 0.735905
Target:  5'- gCUGGCAGAUGCGguauaggCGAcGGGcGAUGUg -3'
miRNA:   3'- -GGCCGUCUGCGCa------GUUaCCCcCUGCA- -5'
13380 5' -57.9 NC_003409.1 + 111251 0.68 0.726252
Target:  5'- gCGuGUGGGgGCGUgGAUGGGGGAg-- -3'
miRNA:   3'- gGC-CGUCUgCGCAgUUACCCCCUgca -5'
13380 5' -57.9 NC_003409.1 + 23482 0.68 0.715542
Target:  5'- gCCGGCGGACcaaugggaGCGgggCAgaggauuAUGGGGGAUu- -3'
miRNA:   3'- -GGCCGUCUG--------CGCa--GU-------UACCCCCUGca -5'
13380 5' -57.9 NC_003409.1 + 119528 0.68 0.715542
Target:  5'- gCCGGCGGACcaaugggaGCGgggCAgaggauuAUGGGGGAUu- -3'
miRNA:   3'- -GGCCGUCUG--------CGCa--GU-------UACCCCCUGca -5'
13380 5' -57.9 NC_003409.1 + 74470 0.68 0.706718
Target:  5'- aCUGGacaaCAGcGCGuCGUCAGUGGGGGAg-- -3'
miRNA:   3'- -GGCC----GUC-UGC-GCAGUUACCCCCUgca -5'
13380 5' -57.9 NC_003409.1 + 39925 0.7 0.606726
Target:  5'- aCCGGCAcGGgGUGUU-AUGGGGuGACGc -3'
miRNA:   3'- -GGCCGU-CUgCGCAGuUACCCC-CUGCa -5'
13380 5' -57.9 NC_003409.1 + 52587 0.7 0.586707
Target:  5'- uCCaGCAGGCGUGgcggcCAAgggGcGGGGACGUg -3'
miRNA:   3'- -GGcCGUCUGCGCa----GUUa--C-CCCCUGCA- -5'
13380 5' -57.9 NC_003409.1 + 40524 0.71 0.576742
Target:  5'- uCCGGCGGugGCGgCcAUGGuGGGAg-- -3'
miRNA:   3'- -GGCCGUCugCGCaGuUACC-CCCUgca -5'
13380 5' -57.9 NC_003409.1 + 10130 0.75 0.367772
Target:  5'- gCUGGCAGAgGUgGUC-AUGGGGGAUGc -3'
miRNA:   3'- -GGCCGUCUgCG-CAGuUACCCCCUGCa -5'
13380 5' -57.9 NC_003409.1 + 35797 1.09 0.001935
Target:  5'- gCCGGCAGACGCGUCAAUGGGGGACGUg -3'
miRNA:   3'- -GGCCGUCUGCGCAGUUACCCCCUGCA- -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.