miRNA display CGI


Results 1 - 20 of 82 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
11500 3' -56.3 NC_003085.1 + 37418 0.67 0.550893
Target:  5'- -gACCGaugcGCCAGuGCGGcuagCgAGCGCCa -3'
miRNA:   3'- agUGGCa---CGGUCuCGUCa---GgUUGCGG- -5'
11500 3' -56.3 NC_003085.1 + 29044 0.69 0.467347
Target:  5'- aCGCCGU-CCAGcAGCAGUuggccaCCAGCcugaGCCa -3'
miRNA:   3'- aGUGGCAcGGUC-UCGUCA------GGUUG----CGG- -5'
11500 3' -56.3 NC_003085.1 + 6594 0.68 0.476439
Target:  5'- cUUGCCGUGgUgcgucagcagaugGGGGUccucaAGUCCGGCGCCg -3'
miRNA:   3'- -AGUGGCACgG-------------UCUCG-----UCAGGUUGCGG- -5'
11500 3' -56.3 NC_003085.1 + 36440 0.68 0.477454
Target:  5'- cUCACCGUGCgGaGGGCGGcgccUCAugGCg -3'
miRNA:   3'- -AGUGGCACGgU-CUCGUCa---GGUugCGg -5'
11500 3' -56.3 NC_003085.1 + 37203 0.68 0.484593
Target:  5'- uUCACgGcGCCAGcggccuucaauucuGGCGGcCCAGcCGCCg -3'
miRNA:   3'- -AGUGgCaCGGUC--------------UCGUCaGGUU-GCGG- -5'
11500 3' -56.3 NC_003085.1 + 15189 0.68 0.487669
Target:  5'- -gGCUGaGCCGGuGCg--CCAGCGCCg -3'
miRNA:   3'- agUGGCaCGGUCuCGucaGGUUGCGG- -5'
11500 3' -56.3 NC_003085.1 + 25292 0.68 0.487669
Target:  5'- cUCACCGcgacgGCCGGccAGguGgaCGACGCCg -3'
miRNA:   3'- -AGUGGCa----CGGUC--UCguCagGUUGCGG- -5'
11500 3' -56.3 NC_003085.1 + 12790 0.68 0.497985
Target:  5'- cCGCCGuUGUCGG-GCAGgugcUCC-ACGCCc -3'
miRNA:   3'- aGUGGC-ACGGUCuCGUC----AGGuUGCGG- -5'
11500 3' -56.3 NC_003085.1 + 21401 0.68 0.529489
Target:  5'- cUCACCaucgGCCGccuGCuGUCCGAgGCCg -3'
miRNA:   3'- -AGUGGca--CGGUcu-CGuCAGGUUgCGG- -5'
11500 3' -56.3 NC_003085.1 + 22985 0.69 0.467347
Target:  5'- cCACCcccaagcaGCCAGAggugcgcgcgccGCAGUCCuGGCGCCc -3'
miRNA:   3'- aGUGGca------CGGUCU------------CGUCAGG-UUGCGG- -5'
11500 3' -56.3 NC_003085.1 + 17625 0.69 0.457351
Target:  5'- gUCG-CGUGCCGGAGCA--CCuGCGCa -3'
miRNA:   3'- -AGUgGCACGGUCUCGUcaGGuUGCGg -5'
11500 3' -56.3 NC_003085.1 + 26793 0.69 0.456358
Target:  5'- gCGCCaacGUGCCGGAGaCGGgauucggCCAgugaugccccugcGCGCCa -3'
miRNA:   3'- aGUGG---CACGGUCUC-GUCa------GGU-------------UGCGG- -5'
11500 3' -56.3 NC_003085.1 + 965 0.74 0.214533
Target:  5'- -gGCCGcUGCCGGGGCAGgac-ACGCCg -3'
miRNA:   3'- agUGGC-ACGGUCUCGUCagguUGCGG- -5'
11500 3' -56.3 NC_003085.1 + 7107 0.73 0.251013
Target:  5'- cUCGCCG-GCCGGaAGaCGGUCacGCGCCg -3'
miRNA:   3'- -AGUGGCaCGGUC-UC-GUCAGguUGCGG- -5'
11500 3' -56.3 NC_003085.1 + 35130 0.71 0.347329
Target:  5'- -gGCCGUGCCAuuGUGGgCCGGCuGCCg -3'
miRNA:   3'- agUGGCACGGUcuCGUCaGGUUG-CGG- -5'
11500 3' -56.3 NC_003085.1 + 45908 0.71 0.364302
Target:  5'- uUCGCCGUGugcgcCCAGAgagGCAG-CCAGaguCGCCa -3'
miRNA:   3'- -AGUGGCAC-----GGUCU---CGUCaGGUU---GCGG- -5'
11500 3' -56.3 NC_003085.1 + 708 0.7 0.373001
Target:  5'- -gGCgCG-GCCuGAGCAgGUCCAcccGCGCCu -3'
miRNA:   3'- agUG-GCaCGGuCUCGU-CAGGU---UGCGG- -5'
11500 3' -56.3 NC_003085.1 + 34056 0.7 0.381841
Target:  5'- cUCACCGcUGCCGGuuuGGCucuGuUCCGcCGCCg -3'
miRNA:   3'- -AGUGGC-ACGGUC---UCGu--C-AGGUuGCGG- -5'
11500 3' -56.3 NC_003085.1 + 1490 0.7 0.390818
Target:  5'- gUCACCGUcGCCAGccuCGG-CCGguGCGCCu -3'
miRNA:   3'- -AGUGGCA-CGGUCuc-GUCaGGU--UGCGG- -5'
11500 3' -56.3 NC_003085.1 + 25885 0.7 0.399933
Target:  5'- cCGCCGUGCCGGAcGCGcuucUCCAGaagauuggGCCg -3'
miRNA:   3'- aGUGGCACGGUCU-CGUc---AGGUUg-------CGG- -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.