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 + 608 0.67 0.406224
Target:  5'- -cUGGcGCCGUCcugGGCGcgcucGAGGCUGGCgCg -3'
miRNA:   3'- gcAUC-CGGCAG---UCGC-----CUUCGACCGgG- -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 + 4100 0.67 0.406224
Target:  5'- gGUGGGCCG--GGCGGuccAGGCUGccaGCCa -3'
miRNA:   3'- gCAUCCGGCagUCGCC---UUCGAC---CGGg -5'
11427 3' -59.2 NC_003085.1 + 9218 0.66 0.453167
Target:  5'- aCGUAGGCCc-CGGCGGcgAAGa--GCCCg -3'
miRNA:   3'- -GCAUCCGGcaGUCGCC--UUCgacCGGG- -5'
11427 3' -59.2 NC_003085.1 + 11202 0.68 0.370944
Target:  5'- cCGUc-GUCGUCGcGCGGAAGUaggUGGCCa -3'
miRNA:   3'- -GCAucCGGCAGU-CGCCUUCG---ACCGGg -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 + 14200 0.7 0.292974
Target:  5'- gCGUccGGGCUGcgacaagcccgcgcgCaAGCGGAAGCaggGGCCCg -3'
miRNA:   3'- -GCA--UCCGGCa--------------G-UCGCCUUCGa--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 + 15116 0.66 0.492761
Target:  5'- cCGgAGGuCCGcaucaaCGGCGGguGCUGGCUg -3'
miRNA:   3'- -GCaUCC-GGCa-----GUCGCCuuCGACCGGg -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 + 18066 0.69 0.321301
Target:  5'- gGUAGacgccucggacaaGCgG-CAGUGGGAGUUGGCCUg -3'
miRNA:   3'- gCAUC-------------CGgCaGUCGCCUUCGACCGGG- -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 + 19199 0.7 0.292256
Target:  5'- aCGUccGCCuGgggCGGCGGggGCUgGGCgCCg -3'
miRNA:   3'- -GCAucCGG-Ca--GUCGCCuuCGA-CCG-GG- -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 + 25755 0.71 0.245347
Target:  5'- --gGGGCCGUCuuGacggaGGAGGCUgcugcgcgGGCCCg -3'
miRNA:   3'- gcaUCCGGCAGu-Cg----CCUUCGA--------CCGGG- -5'
11427 3' -59.2 NC_003085.1 + 26120 0.67 0.397208
Target:  5'- uCGgcGGCCGgCGGCGcuuGGCcGGCCa -3'
miRNA:   3'- -GCauCCGGCaGUCGCcu-UCGaCCGGg -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 + 28605 0.72 0.215798
Target:  5'- gGUGGGCgGcaccgCAGCGGcGAGCUcGGCgCCg -3'
miRNA:   3'- gCAUCCGgCa----GUCGCC-UUCGA-CCG-GG- -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 + 29255 0.68 0.379566
Target:  5'- --aAGG-CGUCcGCGucguGGCUGGCCCa -3'
miRNA:   3'- gcaUCCgGCAGuCGCcu--UCGACCGGG- -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.