miRNA display CGI


Results 1 - 20 of 28 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
12799 5' -54.4 NC_003387.1 + 50303 0.66 0.770388
Target:  5'- -gCGcUGCcACAUCUCCcaggCGGgGUCGu -3'
miRNA:   3'- caGC-ACGuUGUAGAGGa---GCCgCAGCu -5'
12799 5' -54.4 NC_003387.1 + 8918 0.66 0.770388
Target:  5'- aUCGUGCAGCA-CUCgUCGaggaaGCGggCGAc -3'
miRNA:   3'- cAGCACGUUGUaGAGgAGC-----CGCa-GCU- -5'
12799 5' -54.4 NC_003387.1 + 11618 0.66 0.753927
Target:  5'- gGUCGUGCAGCGccagcagcucgcggcUCacgaucgccCCUCGaucGCGUCGAc -3'
miRNA:   3'- -CAGCACGUUGU---------------AGa--------GGAGC---CGCAGCU- -5'
12799 5' -54.4 NC_003387.1 + 21030 0.66 0.74976
Target:  5'- gGUCGuUGCuACGcCUgaCCagUCGGCGUCGAa -3'
miRNA:   3'- -CAGC-ACGuUGUaGA--GG--AGCCGCAGCU- -5'
12799 5' -54.4 NC_003387.1 + 43315 0.66 0.74976
Target:  5'- cGUCG-GCc-CA-CUCCUCGGCGaUCGu -3'
miRNA:   3'- -CAGCaCGuuGUaGAGGAGCCGC-AGCu -5'
12799 5' -54.4 NC_003387.1 + 20427 0.66 0.74976
Target:  5'- gGUUGUGCAGCcgccggugCUCCUCGcGCccccacgccuuGUCGGc -3'
miRNA:   3'- -CAGCACGUUGua------GAGGAGC-CG-----------CAGCU- -5'
12799 5' -54.4 NC_003387.1 + 19119 0.66 0.74976
Target:  5'- gGUCGUGCcACA---CCUCGGCGg-GAu -3'
miRNA:   3'- -CAGCACGuUGUagaGGAGCCGCagCU- -5'
12799 5' -54.4 NC_003387.1 + 40109 0.66 0.74976
Target:  5'- cUCGcagGCGGCGg--CC-CGGCGUCGGg -3'
miRNA:   3'- cAGCa--CGUUGUagaGGaGCCGCAGCU- -5'
12799 5' -54.4 NC_003387.1 + 47551 0.67 0.707143
Target:  5'- gGUCGUGCu-CGUCggccgCaCUCGcGUGUCGGu -3'
miRNA:   3'- -CAGCACGuuGUAGa----G-GAGC-CGCAGCU- -5'
12799 5' -54.4 NC_003387.1 + 34106 0.67 0.707143
Target:  5'- uUCG-GCGGCAgaUCggCGGCGUCGAc -3'
miRNA:   3'- cAGCaCGUUGUagAGgaGCCGCAGCU- -5'
12799 5' -54.4 NC_003387.1 + 35507 0.67 0.685341
Target:  5'- cGUCGaGCGGugUAUCUgCCUCGGCcUCGGc -3'
miRNA:   3'- -CAGCaCGUU--GUAGA-GGAGCCGcAGCU- -5'
12799 5' -54.4 NC_003387.1 + 22488 0.68 0.663332
Target:  5'- cGUCGUaccggGCGACGg--CCUCGGCGgcgcgcUCGAc -3'
miRNA:   3'- -CAGCA-----CGUUGUagaGGAGCCGC------AGCU- -5'
12799 5' -54.4 NC_003387.1 + 25447 0.68 0.663332
Target:  5'- --aGUGCGGCGuUCUCCUC-GCG-CGAc -3'
miRNA:   3'- cagCACGUUGU-AGAGGAGcCGCaGCU- -5'
12799 5' -54.4 NC_003387.1 + 4163 0.68 0.663332
Target:  5'- cGUCGaUGCAcgccuggcACGUgaCCUCGGCG-CGGu -3'
miRNA:   3'- -CAGC-ACGU--------UGUAgaGGAGCCGCaGCU- -5'
12799 5' -54.4 NC_003387.1 + 8267 0.68 0.652278
Target:  5'- -gCGUGCAGCGccUCgcgcagcgCCUCGugcGCGUCGGc -3'
miRNA:   3'- caGCACGUUGU--AGa-------GGAGC---CGCAGCU- -5'
12799 5' -54.4 NC_003387.1 + 2337 0.69 0.59693
Target:  5'- cUCG-GCggUGUCgaggccgCCgUCGGCGUCGAg -3'
miRNA:   3'- cAGCaCGuuGUAGa------GG-AGCCGCAGCU- -5'
12799 5' -54.4 NC_003387.1 + 5296 0.69 0.59693
Target:  5'- uGUUGUGCAugAggccCUCCUCGGgcUCGGg -3'
miRNA:   3'- -CAGCACGUugUa---GAGGAGCCgcAGCU- -5'
12799 5' -54.4 NC_003387.1 + 48393 0.7 0.542323
Target:  5'- -gCGcUGguGCGcCUUCUCGGCGUUGAg -3'
miRNA:   3'- caGC-ACguUGUaGAGGAGCCGCAGCU- -5'
12799 5' -54.4 NC_003387.1 + 50415 0.71 0.458933
Target:  5'- cGUCGgGCGGCAgaUCgucgCCUCGGCGUaCGc -3'
miRNA:   3'- -CAGCaCGUUGU--AGa---GGAGCCGCA-GCu -5'
12799 5' -54.4 NC_003387.1 + 19572 0.71 0.44898
Target:  5'- aGUCGgcugGCGAgc-CUgCUCGGCGUCGAc -3'
miRNA:   3'- -CAGCa---CGUUguaGAgGAGCCGCAGCU- -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.