miRNA display CGI


Results 1 - 20 of 35 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
11427 3' -59.2 NC_003085.1 + 39482 1.12 0.000226
Target:  5'- gCGUAGGCCGUCAGCGGAAGCUGGCCCg -3'
miRNA:   3'- -GCAUCCGGCAGUCGCCUUCGACCGGG- -5'
11427 3' -59.2 NC_003085.1 + 26653 0.76 0.101389
Target:  5'- aGUcgGGGCCGUCgccuccugGGCGGGAGC-GGCCg -3'
miRNA:   3'- gCA--UCCGGCAG--------UCGCCUUCGaCCGGg -5'
11427 3' -59.2 NC_003085.1 + 28956 0.74 0.137244
Target:  5'- cCGUGGGCCucccaaCAGUGGAcGCaggGGCCCa -3'
miRNA:   3'- -GCAUCCGGca----GUCGCCUuCGa--CCGGG- -5'
11427 3' -59.2 NC_003085.1 + 48993 0.74 0.141028
Target:  5'- cCGUGGGCaccugcaaCAGCGccGGCUGGCCCu -3'
miRNA:   3'- -GCAUCCGgca-----GUCGCcuUCGACCGGG- -5'
11427 3' -59.2 NC_003085.1 + 22588 0.74 0.152958
Target:  5'- uGUGGGCCG-CGGCGGAgaaaaAGCgGGCg- -3'
miRNA:   3'- gCAUCCGGCaGUCGCCU-----UCGaCCGgg -5'
11427 3' -59.2 NC_003085.1 + 28605 0.72 0.215798
Target:  5'- gGUGGGCgGcaccgCAGCGGcGAGCUcGGCgCCg -3'
miRNA:   3'- gCAUCCGgCa----GUCGCC-UUCGA-CCG-GG- -5'
11427 3' -59.2 NC_003085.1 + 25755 0.71 0.245347
Target:  5'- --gGGGCCGUCuuGacggaGGAGGCUgcugcgcgGGCCCg -3'
miRNA:   3'- gcaUCCGGCAGu-Cg----CCUUCGA--------CCGGG- -5'
11427 3' -59.2 NC_003085.1 + 3186 0.71 0.245347
Target:  5'- aGUA-GCCGUCcucucGCGGGccCUGGCCCg -3'
miRNA:   3'- gCAUcCGGCAGu----CGCCUucGACCGGG- -5'
11427 3' -59.2 NC_003085.1 + 34439 0.7 0.285147
Target:  5'- -uUGGGCCGgccCAGCGGcAAGUccaguugcucUGGCUCa -3'
miRNA:   3'- gcAUCCGGCa--GUCGCC-UUCG----------ACCGGG- -5'
11427 3' -59.2 NC_003085.1 + 15623 0.7 0.287974
Target:  5'- aCGUGGGCCGguggCcgGGCGGAGagcguccacaacauuGCUGcCCCg -3'
miRNA:   3'- -GCAUCCGGCa---G--UCGCCUU---------------CGACcGGG- -5'
11427 3' -59.2 NC_003085.1 + 19199 0.7 0.292256
Target:  5'- aCGUccGCCuGgggCGGCGGggGCUgGGCgCCg -3'
miRNA:   3'- -GCAucCGG-Ca--GUCGCCuuCGA-CCG-GG- -5'
11427 3' -59.2 NC_003085.1 + 19061 0.7 0.292256
Target:  5'- ---cGGCgCG-CGGCGGAgcaGGCgccgGGCCCg -3'
miRNA:   3'- gcauCCG-GCaGUCGCCU---UCGa---CCGGG- -5'
11427 3' -59.2 NC_003085.1 + 15058 0.7 0.292256
Target:  5'- --aGGGCCaaagccUC-GUGGGAGUUGGCCCu -3'
miRNA:   3'- gcaUCCGGc-----AGuCGCCUUCGACCGGG- -5'
11427 3' -59.2 NC_003085.1 + 14200 0.7 0.292974
Target:  5'- gCGUccGGGCUGcgacaagcccgcgcgCaAGCGGAAGCaggGGCCCg -3'
miRNA:   3'- -GCA--UCCGGCa--------------G-UCGCCUUCGa--CCGGG- -5'
11427 3' -59.2 NC_003085.1 + 32474 0.69 0.299503
Target:  5'- uCGUc-GCCGUCGGCGuc-GCgGGCCCg -3'
miRNA:   3'- -GCAucCGGCAGUCGCcuuCGaCCGGG- -5'
11427 3' -59.2 NC_003085.1 + 40819 0.69 0.312895
Target:  5'- gCGUcccGGCCGgccuguaccugaCGGCGGccGGGCUGGCCa -3'
miRNA:   3'- -GCAu--CCGGCa-----------GUCGCC--UUCGACCGGg -5'
11427 3' -59.2 NC_003085.1 + 18066 0.69 0.321301
Target:  5'- gGUAGacgccucggacaaGCgG-CAGUGGGAGUUGGCCUg -3'
miRNA:   3'- gCAUC-------------CGgCaGUCGCCUUCGACCGGG- -5'
11427 3' -59.2 NC_003085.1 + 12247 0.69 0.337813
Target:  5'- -cUGGGCCGcCAGaauugaaGGccGCUGGCgCCg -3'
miRNA:   3'- gcAUCCGGCaGUCg------CCuuCGACCG-GG- -5'
11427 3' -59.2 NC_003085.1 + 34929 0.68 0.34589
Target:  5'- gGUgcAGGCgcaCG-CGGCGGAGuuGCUGGCCg -3'
miRNA:   3'- gCA--UCCG---GCaGUCGCCUU--CGACCGGg -5'
11427 3' -59.2 NC_003085.1 + 47955 0.68 0.362456
Target:  5'- uGgcGGCCGUgaggcgcacCGGCcGAGGCUGGCg- -3'
miRNA:   3'- gCauCCGGCA---------GUCGcCUUCGACCGgg -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.