miRNA display CGI


Results 1 - 20 of 133 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
11519 3' -63.1 NC_003085.1 + 3570 1.12 0.00009
Target:  5'- gCCGGGCGGCAAGCGCGCCUCGCUGCCg -3'
miRNA:   3'- -GGCCCGCCGUUCGCGCGGAGCGACGG- -5'
11519 3' -63.1 NC_003085.1 + 46811 0.84 0.013836
Target:  5'- uUCGGGCGGCuggcAGCGCGCgCgaaggCGCUGCCc -3'
miRNA:   3'- -GGCCCGCCGu---UCGCGCG-Ga----GCGACGG- -5'
11519 3' -63.1 NC_003085.1 + 23731 0.78 0.041471
Target:  5'- cCUGGGCGGCGuucgccuGCGCgGCCUgcucgCGCUGCUg -3'
miRNA:   3'- -GGCCCGCCGUu------CGCG-CGGA-----GCGACGG- -5'
11519 3' -63.1 NC_003085.1 + 22865 0.77 0.051815
Target:  5'- cCUGGGCGG-GAGCG-GCCguugcCGCUGCCg -3'
miRNA:   3'- -GGCCCGCCgUUCGCgCGGa----GCGACGG- -5'
11519 3' -63.1 NC_003085.1 + 26942 0.76 0.059513
Target:  5'- aCCGGcGcCGGCAGGUGCGCCUC-CUGa- -3'
miRNA:   3'- -GGCC-C-GCCGUUCGCGCGGAGcGACgg -5'
11519 3' -63.1 NC_003085.1 + 40350 0.76 0.064652
Target:  5'- gUGGGCGGUggGCaaGCCgcuGCUGCCc -3'
miRNA:   3'- gGCCCGCCGuuCGcgCGGag-CGACGG- -5'
11519 3' -63.1 NC_003085.1 + 2381 0.76 0.066458
Target:  5'- gCCGGuGgcgaGGCAGGCcaGCGCCgUGCUGCCg -3'
miRNA:   3'- -GGCC-Cg---CCGUUCG--CGCGGaGCGACGG- -5'
11519 3' -63.1 NC_003085.1 + 19081 0.75 0.074181
Target:  5'- gCCGGGCccGGacgGAGUGCGCCgcacccgcuUCGCUGUCa -3'
miRNA:   3'- -GGCCCG--CCg--UUCGCGCGG---------AGCGACGG- -5'
11519 3' -63.1 NC_003085.1 + 29320 0.75 0.074181
Target:  5'- aCUGGGCGuuGCGGuaG-GCCUCGCUGCCc -3'
miRNA:   3'- -GGCCCGC--CGUUcgCgCGGAGCGACGG- -5'
11519 3' -63.1 NC_003085.1 + 45979 0.74 0.089809
Target:  5'- -gGGGCGGCAGauGCGCGCCUCuccccacaggGUgacgacgGCCg -3'
miRNA:   3'- ggCCCGCCGUU--CGCGCGGAG----------CGa------CGG- -5'
11519 3' -63.1 NC_003085.1 + 33024 0.74 0.091534
Target:  5'- gCCGcaaGCauGGCAGGCGCGCCUguugagccggucgcCGUUGCCg -3'
miRNA:   3'- -GGCc--CG--CCGUUCGCGCGGA--------------GCGACGG- -5'
11519 3' -63.1 NC_003085.1 + 23316 0.74 0.092283
Target:  5'- gCGGGCGGCGcGGUGCGaagCGCggcgGCCg -3'
miRNA:   3'- gGCCCGCCGU-UCGCGCggaGCGa---CGG- -5'
11519 3' -63.1 NC_003085.1 + 41044 0.74 0.094052
Target:  5'- cCUGGGCGGCuuGGCGgGCUgcuacgcgacuggggGCUGCCg -3'
miRNA:   3'- -GGCCCGCCGu-UCGCgCGGag-------------CGACGG- -5'
11519 3' -63.1 NC_003085.1 + 27704 0.74 0.094564
Target:  5'- uCUGGGCGuccgcccGCuguCGCGCCUCGUUGCUg -3'
miRNA:   3'- -GGCCCGC-------CGuucGCGCGGAGCGACGG- -5'
11519 3' -63.1 NC_003085.1 + 33899 0.74 0.094821
Target:  5'- gCCGGGCGGaGAGCGUcCacaacaUUGCUGCCc -3'
miRNA:   3'- -GGCCCGCCgUUCGCGcGg-----AGCGACGG- -5'
11519 3' -63.1 NC_003085.1 + 18295 0.74 0.094821
Target:  5'- aCCGGGCGGU--GCaCGCCccggCGCUGgCCg -3'
miRNA:   3'- -GGCCCGCCGuuCGcGCGGa---GCGAC-GG- -5'
11519 3' -63.1 NC_003085.1 + 37519 0.73 0.099826
Target:  5'- aUGcGGUGGCGGGCGCgggguugGCgCUCGCUaGCCg -3'
miRNA:   3'- gGC-CCGCCGUUCGCG-------CG-GAGCGA-CGG- -5'
11519 3' -63.1 NC_003085.1 + 27015 0.73 0.100096
Target:  5'- aCGGGCcuuGGUGugccuGCGCGCUcgaCGCUGCCa -3'
miRNA:   3'- gGCCCG---CCGUu----CGCGCGGa--GCGACGG- -5'
11519 3' -63.1 NC_003085.1 + 32924 0.73 0.105648
Target:  5'- cCCGGGCGGUcccgcGGCGCGCggccuCUCGg-GCCc -3'
miRNA:   3'- -GGCCCGCCGu----UCGCGCG-----GAGCgaCGG- -5'
11519 3' -63.1 NC_003085.1 + 10264 0.73 0.105648
Target:  5'- gCGGGUGaGCAGGuCGCGCaUUGCaGCCg -3'
miRNA:   3'- gGCCCGC-CGUUC-GCGCGgAGCGaCGG- -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.