miRNA display CGI


Results 1 - 19 of 19 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
12019 3' -63 NC_003278.1 + 16854 0.66 0.278184
Target:  5'- uCCGGuGCG-GCC-GGCCgGUGuUCUGCGa -3'
miRNA:   3'- -GGCC-CGCaUGGaCCGGgUAC-GGGCGC- -5'
12019 3' -63 NC_003278.1 + 34437 0.66 0.272068
Target:  5'- aCGGGCGgaaggcgucugguuaGCUUGGCCUgcugcugcaGUGCgCGCa -3'
miRNA:   3'- gGCCCGCa--------------UGGACCGGG---------UACGgGCGc -5'
12019 3' -63 NC_003278.1 + 21243 0.66 0.271395
Target:  5'- cCUGGGC-UACCUGGgcaucgaCC-UGCCgGCGc -3'
miRNA:   3'- -GGCCCGcAUGGACCg------GGuACGGgCGC- -5'
12019 3' -63 NC_003278.1 + 21633 0.66 0.26474
Target:  5'- gCUGGGCG-ACCUGGgCaagagcGCCgGCGc -3'
miRNA:   3'- -GGCCCGCaUGGACCgGgua---CGGgCGC- -5'
12019 3' -63 NC_003278.1 + 30017 0.67 0.233437
Target:  5'- aCCGuGGCGU-UCUGGCUCAucaccagggUGC-CGCGg -3'
miRNA:   3'- -GGC-CCGCAuGGACCGGGU---------ACGgGCGC- -5'
12019 3' -63 NC_003278.1 + 9464 0.67 0.233437
Target:  5'- aCCuGGCGcaggcccGCCUGGCCCAgGCCgaguugGCGa -3'
miRNA:   3'- -GGcCCGCa------UGGACCGGGUaCGGg-----CGC- -5'
12019 3' -63 NC_003278.1 + 2033 0.67 0.216189
Target:  5'- gCCGcGGCGcaugUACUUGGCCagcggcGCCUGCa -3'
miRNA:   3'- -GGC-CCGC----AUGGACCGGgua---CGGGCGc -5'
12019 3' -63 NC_003278.1 + 13259 0.67 0.216189
Target:  5'- gCCgGGGCGcUGCCguuGCCCugggcgGCCUGCa -3'
miRNA:   3'- -GG-CCCGC-AUGGac-CGGGua----CGGGCGc -5'
12019 3' -63 NC_003278.1 + 13054 0.67 0.210687
Target:  5'- gCGGGCGcagaugGCCUgggaaGGCCUcaGCaCCGCGg -3'
miRNA:   3'- gGCCCGCa-----UGGA-----CCGGGuaCG-GGCGC- -5'
12019 3' -63 NC_003278.1 + 11963 0.67 0.210687
Target:  5'- -gGGGCGUuCCauucgcggucGGCgCcgGCCCGCGg -3'
miRNA:   3'- ggCCCGCAuGGa---------CCGgGuaCGGGCGC- -5'
12019 3' -63 NC_003278.1 + 31169 0.67 0.204775
Target:  5'- gCCaGGGCG-GCCUGGaCCAUguucucgGCCCGUu -3'
miRNA:   3'- -GG-CCCGCaUGGACCgGGUA-------CGGGCGc -5'
12019 3' -63 NC_003278.1 + 32157 0.68 0.189873
Target:  5'- gCUGGGCGgu-CUGGCCCAg--UCGCGg -3'
miRNA:   3'- -GGCCCGCaugGACCGGGUacgGGCGC- -5'
12019 3' -63 NC_003278.1 + 17190 0.68 0.184959
Target:  5'- gCGGGCagcGUACC--GCUgGUGCCCGCc -3'
miRNA:   3'- gGCCCG---CAUGGacCGGgUACGGGCGc -5'
12019 3' -63 NC_003278.1 + 18570 0.68 0.180158
Target:  5'- gCUGGGCGUcACCcauuucgaUGGUCuCGUGCCgGCc -3'
miRNA:   3'- -GGCCCGCA-UGG--------ACCGG-GUACGGgCGc -5'
12019 3' -63 NC_003278.1 + 9842 0.7 0.126821
Target:  5'- gUCGaGCGUaucgGCCUGGCCUgggccgaGUGCgCCGCGa -3'
miRNA:   3'- -GGCcCGCA----UGGACCGGG-------UACG-GGCGC- -5'
12019 3' -63 NC_003278.1 + 28709 0.71 0.120091
Target:  5'- gCCGGGUGUACCUgugGGCgCCGgguucguUGUCCaGCGc -3'
miRNA:   3'- -GGCCCGCAUGGA---CCG-GGU-------ACGGG-CGC- -5'
12019 3' -63 NC_003278.1 + 21435 0.76 0.048006
Target:  5'- cCUGGGCGgguucaccauggccgGCCUGGCCCAggGCCUcgGCGc -3'
miRNA:   3'- -GGCCCGCa--------------UGGACCGGGUa-CGGG--CGC- -5'
12019 3' -63 NC_003278.1 + 22133 0.76 0.04787
Target:  5'- aCCGGGUcgGCCUGGCCCAUGgUCGa- -3'
miRNA:   3'- -GGCCCGcaUGGACCGGGUACgGGCgc -5'
12019 3' -63 NC_003278.1 + 28226 1.1 0.000091
Target:  5'- cCCGGGCGUACCUGGCCCAUGCCCGCGg -3'
miRNA:   3'- -GGCCCGCAUGGACCGGGUACGGGCGC- -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.