miRNA display CGI


Results 1 - 20 of 21 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
26472 3' -66 NC_005357.1 + 13068 0.66 0.19327
Target:  5'- gCuGGGGCaAGGCcaccGGCGCGugguucgaggacuuGGCCGGc- -3'
miRNA:   3'- gGuCCCCG-UCCG----UCGCGC--------------CCGGCCaa -5'
26472 3' -66 NC_005357.1 + 5427 0.66 0.184969
Target:  5'- uCCAcGGcGCGgauGGCGGCGUGGGCgaGGUc -3'
miRNA:   3'- -GGUcCC-CGU---CCGUCGCGCCCGg-CCAa -5'
26472 3' -66 NC_005357.1 + 31016 0.66 0.171088
Target:  5'- uCCAcGGGCuugccggccgAGGCAaucGCGCGGGCCa--- -3'
miRNA:   3'- -GGUcCCCG----------UCCGU---CGCGCCCGGccaa -5'
26472 3' -66 NC_005357.1 + 6619 0.66 0.170642
Target:  5'- aCCAGcGGGCGcguGGCGcugcGCGCGGacacguacagguuGCCGGg- -3'
miRNA:   3'- -GGUC-CCCGU---CCGU----CGCGCC-------------CGGCCaa -5'
26472 3' -66 NC_005357.1 + 10937 0.66 0.166672
Target:  5'- gCAGGGccuCGGGCAguuGCGCGGcgacaGCCGGg- -3'
miRNA:   3'- gGUCCCc--GUCCGU---CGCGCC-----CGGCCaa -5'
26472 3' -66 NC_005357.1 + 16895 0.67 0.164071
Target:  5'- aCGGGGGCGcugccggcGGCGGCaaaaccgaccucaucGCGGGCCuGa- -3'
miRNA:   3'- gGUCCCCGU--------CCGUCG---------------CGCCCGGcCaa -5'
26472 3' -66 NC_005357.1 + 31073 0.67 0.155665
Target:  5'- aUCAGGGGCcuGGUgccgcugcucaccucGGUGCaGGCCGGc- -3'
miRNA:   3'- -GGUCCCCGu-CCG---------------UCGCGcCCGGCCaa -5'
26472 3' -66 NC_005357.1 + 6157 0.67 0.153625
Target:  5'- cCCAGGGGUgAGGCacgGGCacccuuaGCGGGCCu--- -3'
miRNA:   3'- -GGUCCCCG-UCCG---UCG-------CGCCCGGccaa -5'
26472 3' -66 NC_005357.1 + 3545 0.67 0.142265
Target:  5'- uCCAGGcGCcgccgaauAGcGCAGCaGCGGGCUGGg- -3'
miRNA:   3'- -GGUCCcCG--------UC-CGUCG-CGCCCGGCCaa -5'
26472 3' -66 NC_005357.1 + 22765 0.67 0.142265
Target:  5'- cCCAGGGuGaGGGCcgauuGGUcaacgcccuGCGGGCCGGUc -3'
miRNA:   3'- -GGUCCC-CgUCCG-----UCG---------CGCCCGGCCAa -5'
26472 3' -66 NC_005357.1 + 2221 0.67 0.141135
Target:  5'- --cGGGuagcaccacgcgcaGCAGGCGGCGCGuGGCCGc-- -3'
miRNA:   3'- gguCCC--------------CGUCCGUCGCGC-CCGGCcaa -5'
26472 3' -66 NC_005357.1 + 23650 0.68 0.131327
Target:  5'- gCCGGcGGCGGGCAGCaacugcaccagGCgacccucggucGGGCCGGa- -3'
miRNA:   3'- -GGUCcCCGUCCGUCG-----------CG-----------CCCGGCCaa -5'
26472 3' -66 NC_005357.1 + 36041 0.68 0.130277
Target:  5'- aCCGGGccGGCcGGCcuGCGCcugauugccgacguGGGCCGGUUc -3'
miRNA:   3'- -GGUCC--CCGuCCGu-CGCG--------------CCCGGCCAA- -5'
26472 3' -66 NC_005357.1 + 28075 0.68 0.127857
Target:  5'- aCAGcGGGCAGGUGGcCGCGGcGUCGu-- -3'
miRNA:   3'- gGUC-CCCGUCCGUC-GCGCC-CGGCcaa -5'
26472 3' -66 NC_005357.1 + 17682 0.68 0.11795
Target:  5'- gCuGGGcGUAGGCgaAGCGCcacucGGGCCGGg- -3'
miRNA:   3'- gGuCCC-CGUCCG--UCGCG-----CCCGGCCaa -5'
26472 3' -66 NC_005357.1 + 19621 0.69 0.108467
Target:  5'- uCCGGGGucauGCGGGCcgcgacaucggccAGCGuCGGGuuGGUg -3'
miRNA:   3'- -GGUCCC----CGUCCG-------------UCGC-GCCCggCCAa -5'
26472 3' -66 NC_005357.1 + 675 0.69 0.10585
Target:  5'- aCCAGGccGCcuacGGCGGCGCcGGCCGGg- -3'
miRNA:   3'- -GGUCCc-CGu---CCGUCGCGcCCGGCCaa -5'
26472 3' -66 NC_005357.1 + 41432 0.7 0.088891
Target:  5'- gCCAGuGGcGCGGGCAGCGggcugacggugaaGGGCUGGc- -3'
miRNA:   3'- -GGUC-CC-CGUCCGUCGCg------------CCCGGCCaa -5'
26472 3' -66 NC_005357.1 + 41134 0.71 0.074124
Target:  5'- gCCcuGGGCGcGGCGGUGUGGGCgGGc- -3'
miRNA:   3'- -GGucCCCGU-CCGUCGCGCCCGgCCaa -5'
26472 3' -66 NC_005357.1 + 22486 0.73 0.048821
Target:  5'- aCCAGGGGCGGGC----UGGGCUGGUc -3'
miRNA:   3'- -GGUCCCCGUCCGucgcGCCCGGCCAa -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.