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
18723 3' -58.4 NC_004682.1 + 7849 0.66 0.543871
Target:  5'- -gGCcaCGGUGucGUUGCCGGgGAUGugCg -3'
miRNA:   3'- uaCGc-GCCAC--CAACGGCCaCUGCugG- -5'
18723 3' -58.4 NC_004682.1 + 12150 0.66 0.543871
Target:  5'- -cGaCGCcGUGGUcagGuuGGUGuCGGCCa -3'
miRNA:   3'- uaC-GCGcCACCAa--CggCCACuGCUGG- -5'
18723 3' -58.4 NC_004682.1 + 5155 0.66 0.522899
Target:  5'- -gGUGCGGgugcGGgagcaGCCGGUG-CGGCg -3'
miRNA:   3'- uaCGCGCCa---CCaa---CGGCCACuGCUGg -5'
18723 3' -58.4 NC_004682.1 + 10799 0.66 0.512529
Target:  5'- -gGUGCGacugcaaaGUGG-UGCCGGUcuucaaggugGACGACUg -3'
miRNA:   3'- uaCGCGC--------CACCaACGGCCA----------CUGCUGG- -5'
18723 3' -58.4 NC_004682.1 + 7936 0.66 0.498157
Target:  5'- -aGCGgGGgccuccaGGgcgucguagagcaUGCCGGUGuCGACCg -3'
miRNA:   3'- uaCGCgCCa------CCa------------ACGGCCACuGCUGG- -5'
18723 3' -58.4 NC_004682.1 + 48807 0.67 0.481956
Target:  5'- cUGCaCGuccgGGUUGCCGGcGAUGACUu -3'
miRNA:   3'- uACGcGCca--CCAACGGCCaCUGCUGG- -5'
18723 3' -58.4 NC_004682.1 + 22983 0.67 0.471961
Target:  5'- -cGCGUGGUGGaUUcGUCGcaacGUGACGcCCg -3'
miRNA:   3'- uaCGCGCCACC-AA-CGGC----CACUGCuGG- -5'
18723 3' -58.4 NC_004682.1 + 45218 0.67 0.470968
Target:  5'- uUGCGCGGUugucgggGGUcucugagagaguUGCUGGc-ACGACCa -3'
miRNA:   3'- uACGCGCCA-------CCA------------ACGGCCacUGCUGG- -5'
18723 3' -58.4 NC_004682.1 + 5626 0.67 0.448414
Target:  5'- -cGCGCacucgcgGUCGGUGACGACCu -3'
miRNA:   3'- uaCGCGccaccaaCGGCCACUGCUGG- -5'
18723 3' -58.4 NC_004682.1 + 48077 0.67 0.432134
Target:  5'- -gGCGauGUcucgaugGGUcagGCCGGUGACGGCg -3'
miRNA:   3'- uaCGCgcCA-------CCAa--CGGCCACUGCUGg -5'
18723 3' -58.4 NC_004682.1 + 14998 0.68 0.405178
Target:  5'- -gGCGuCGGUGc--GCCGG-GACGACg -3'
miRNA:   3'- uaCGC-GCCACcaaCGGCCaCUGCUGg -5'
18723 3' -58.4 NC_004682.1 + 16900 0.68 0.396132
Target:  5'- -gGCGCGuucGG-UGCCGGUGuCGGCg -3'
miRNA:   3'- uaCGCGCca-CCaACGGCCACuGCUGg -5'
18723 3' -58.4 NC_004682.1 + 9259 0.69 0.364664
Target:  5'- gGUGCGCgGGUcgaucugugcguacaGGUUgGUCGGUGGCucGACCc -3'
miRNA:   3'- -UACGCG-CCA---------------CCAA-CGGCCACUG--CUGG- -5'
18723 3' -58.4 NC_004682.1 + 39777 0.69 0.360433
Target:  5'- -cGCaGCGGUaccugcuGGggGCCGGaUGACGcuGCCg -3'
miRNA:   3'- uaCG-CGCCA-------CCaaCGGCC-ACUGC--UGG- -5'
18723 3' -58.4 NC_004682.1 + 25322 0.69 0.352902
Target:  5'- uUGaCGCGGUGGgcuaccUUGCCGGUcucCGGCUc -3'
miRNA:   3'- uAC-GCGCCACC------AACGGCCAcu-GCUGG- -5'
18723 3' -58.4 NC_004682.1 + 17867 0.69 0.33657
Target:  5'- --uCGCGGUGGcgaggGCCGG-GAUGugCg -3'
miRNA:   3'- uacGCGCCACCaa---CGGCCaCUGCugG- -5'
18723 3' -58.4 NC_004682.1 + 22864 0.71 0.250277
Target:  5'- gGUGCGCGGUGGcaucaugGCCGucguCGGCCu -3'
miRNA:   3'- -UACGCGCCACCaa-----CGGCcacuGCUGG- -5'
18723 3' -58.4 NC_004682.1 + 35190 0.72 0.225861
Target:  5'- aGUGCGUGGUGGccGgCGGUGuGCG-CCg -3'
miRNA:   3'- -UACGCGCCACCaaCgGCCAC-UGCuGG- -5'
18723 3' -58.4 NC_004682.1 + 6521 0.73 0.202962
Target:  5'- -gGCGCGGUGGUcgucgGCCaGGUGcucaagcACGACa -3'
miRNA:   3'- uaCGCGCCACCAa----CGG-CCAC-------UGCUGg -5'
18723 3' -58.4 NC_004682.1 + 13523 0.75 0.139785
Target:  5'- gAUGgGCGGgucugGGUguUGCCguccucgucGGUGACGACCu -3'
miRNA:   3'- -UACgCGCCa----CCA--ACGG---------CCACUGCUGG- -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.