miRNA display CGI


Results 1 - 20 of 25 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
18437 3' -56.2 NC_004681.1 + 59317 0.66 0.759788
Target:  5'- gAGGAGcuGaCGUUCU--GGAAGCUGGACg -3'
miRNA:   3'- -UCCUUc-C-GCAGGAgcUCUUCGACCUG- -5'
18437 3' -56.2 NC_004681.1 + 11833 0.66 0.749694
Target:  5'- cAGGAGGGUGUCCUUcAGGuugccgucAGUgGGAUc -3'
miRNA:   3'- -UCCUUCCGCAGGAGcUCU--------UCGaCCUG- -5'
18437 3' -56.2 NC_004681.1 + 37386 0.66 0.748678
Target:  5'- uGGAGcugacccGGCGcaaCCUgGAGAcguugcucaagaAGCUGGACg -3'
miRNA:   3'- uCCUU-------CCGCa--GGAgCUCU------------UCGACCUG- -5'
18437 3' -56.2 NC_004681.1 + 16596 0.66 0.747661
Target:  5'- uGGGAguuccaguugccgGGGCGcggcgccgaguagUCCgUGGGggGCUGGAa -3'
miRNA:   3'- -UCCU-------------UCCGC-------------AGGaGCUCuuCGACCUg -5'
18437 3' -56.2 NC_004681.1 + 37638 0.66 0.72294
Target:  5'- aAGGAcauccaccacaucaaGGGUGUCaUCGAGAAGUcGGGg -3'
miRNA:   3'- -UCCU---------------UCCGCAGgAGCUCUUCGaCCUg -5'
18437 3' -56.2 NC_004681.1 + 50993 0.66 0.718768
Target:  5'- uGGAAcaccGGCGUCgacgUCGGGGAGCUcuuccacaaGGGCg -3'
miRNA:   3'- uCCUU----CCGCAGg---AGCUCUUCGA---------CCUG- -5'
18437 3' -56.2 NC_004681.1 + 10710 0.66 0.712484
Target:  5'- cAGGGAGaCGUCCgugaCgugguaguggacaccGAGAGGCUGGAa -3'
miRNA:   3'- -UCCUUCcGCAGGa---G---------------CUCUUCGACCUg -5'
18437 3' -56.2 NC_004681.1 + 50216 0.66 0.704065
Target:  5'- cAGcGAGGGCGaugagcUCCUCGAGGcugauguAGCcguccuuguaguccUGGACg -3'
miRNA:   3'- -UC-CUUCCGC------AGGAGCUCU-------UCG--------------ACCUG- -5'
18437 3' -56.2 NC_004681.1 + 59006 0.67 0.680705
Target:  5'- cGGAgcAGuaGUCCUCGAuguccucgucagcgaGAAGCUGG-Cg -3'
miRNA:   3'- uCCU--UCcgCAGGAGCU---------------CUUCGACCuG- -5'
18437 3' -56.2 NC_004681.1 + 1281 0.67 0.665721
Target:  5'- cGGAGGGCG-CC-CaGGAAGUcugGGACg -3'
miRNA:   3'- uCCUUCCGCaGGaGcUCUUCGa--CCUG- -5'
18437 3' -56.2 NC_004681.1 + 1866 0.67 0.65498
Target:  5'- gAGGAGGGCGauggCCUgGGGAAcuacCUGGGu -3'
miRNA:   3'- -UCCUUCCGCa---GGAgCUCUUc---GACCUg -5'
18437 3' -56.2 NC_004681.1 + 48860 0.67 0.64422
Target:  5'- cAGGuguAGccgcCGUCCUgGAGguGCUGGACc -3'
miRNA:   3'- -UCCu--UCc---GCAGGAgCUCuuCGACCUG- -5'
18437 3' -56.2 NC_004681.1 + 16391 0.68 0.633448
Target:  5'- cGGGGAuGC--CCUCGGGGAGCUGGu- -3'
miRNA:   3'- -UCCUUcCGcaGGAGCUCUUCGACCug -5'
18437 3' -56.2 NC_004681.1 + 51299 0.69 0.579753
Target:  5'- cGGGguGGCGUUCUUggaGAGAAGCaUGG-Cg -3'
miRNA:   3'- -UCCuuCCGCAGGAG---CUCUUCG-ACCuG- -5'
18437 3' -56.2 NC_004681.1 + 1029 0.69 0.569105
Target:  5'- gAGGucGGCGUCUUgGAGGaugAGCUcgaGGAUg -3'
miRNA:   3'- -UCCuuCCGCAGGAgCUCU---UCGA---CCUG- -5'
18437 3' -56.2 NC_004681.1 + 52075 0.69 0.569105
Target:  5'- cAGGGAGGCGUCgUCGuggauuuccAGggGgaGGuCc -3'
miRNA:   3'- -UCCUUCCGCAGgAGC---------UCuuCgaCCuG- -5'
18437 3' -56.2 NC_004681.1 + 5470 0.69 0.558507
Target:  5'- uGGGAguGGGuCG-CCUCGAc--GCUGGACa -3'
miRNA:   3'- -UCCU--UCC-GCaGGAGCUcuuCGACCUG- -5'
18437 3' -56.2 NC_004681.1 + 46708 0.7 0.515719
Target:  5'- cGGGgcGGgGUCCUCGGcGAgugggccGGuCUGGGCu -3'
miRNA:   3'- -UCCuuCCgCAGGAGCU-CU-------UC-GACCUG- -5'
18437 3' -56.2 NC_004681.1 + 73578 0.7 0.506498
Target:  5'- cAGGAAcGGCcguguuggcacuGUCCUCGAGGAcaauGgUGGGCa -3'
miRNA:   3'- -UCCUU-CCG------------CAGGAGCUCUU----CgACCUG- -5'
18437 3' -56.2 NC_004681.1 + 39001 0.7 0.50039
Target:  5'- gAGGAAGGCGUCaacgUCGAcggccugcuGGuggugcgcccacccaAGCUGGACc -3'
miRNA:   3'- -UCCUUCCGCAGg---AGCU---------CU---------------UCGACCUG- -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.