miRNA display CGI


Results 1 - 20 of 34 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
23203 3' -56.4 NC_005259.1 + 68091 0.7 0.462272
Target:  5'- aGCUCGAuGGcCGGgGuaacgacguaguUCGGGUCGAGaGCa -3'
miRNA:   3'- -CGAGUU-CC-GCCgCu-----------AGUCCAGCUC-CG- -5'
23203 3' -56.4 NC_005259.1 + 26691 0.66 0.749769
Target:  5'- -aUCGAGGCGGgGAacUCGgGGUUGAuuuccucgaccaucgGGCc -3'
miRNA:   3'- cgAGUUCCGCCgCU--AGU-CCAGCU---------------CCG- -5'
23203 3' -56.4 NC_005259.1 + 778 0.68 0.618192
Target:  5'- cGC-CGAGGCGGCugcccucGGUUGGGUggccaaGGGGCc -3'
miRNA:   3'- -CGaGUUCCGCCG-------CUAGUCCAg-----CUCCG- -5'
23203 3' -56.4 NC_005259.1 + 23285 0.68 0.597893
Target:  5'- --cCGGGcGCGGUGGUUGGGuaUCGGGGUc -3'
miRNA:   3'- cgaGUUC-CGCCGCUAGUCC--AGCUCCG- -5'
23203 3' -56.4 NC_005259.1 + 16676 0.68 0.597893
Target:  5'- cCUCGAuguGGuCGGCGAUCcuGGGcacCGAGGUg -3'
miRNA:   3'- cGAGUU---CC-GCCGCUAG--UCCa--GCUCCG- -5'
23203 3' -56.4 NC_005259.1 + 17171 0.69 0.555546
Target:  5'- aGCUgacgaCAAGGCGGCG--CAGGaagccgcgcgUGAGGCg -3'
miRNA:   3'- -CGA-----GUUCCGCCGCuaGUCCa---------GCUCCG- -5'
23203 3' -56.4 NC_005259.1 + 25413 0.69 0.545085
Target:  5'- cCUCAaccGGGaCGGCGA---GGUCGAGGa -3'
miRNA:   3'- cGAGU---UCC-GCCGCUaguCCAGCUCCg -5'
23203 3' -56.4 NC_005259.1 + 51139 0.69 0.534689
Target:  5'- -gUCGGGGCGGCcauGAgcgcguUCGGGUUGAccguGGCg -3'
miRNA:   3'- cgAGUUCCGCCG---CU------AGUCCAGCU----CCG- -5'
23203 3' -56.4 NC_005259.1 + 40037 0.7 0.518205
Target:  5'- uGCuUUGAGGUcgccGGUGAUCGGGUCGgucgcgaugacccauGGGCc -3'
miRNA:   3'- -CG-AGUUCCG----CCGCUAGUCCAGC---------------UCCG- -5'
23203 3' -56.4 NC_005259.1 + 53009 0.7 0.493872
Target:  5'- cCUCGacuGGGCGcuGCGGUgGcGUCGAGGCa -3'
miRNA:   3'- cGAGU---UCCGC--CGCUAgUcCAGCUCCG- -5'
23203 3' -56.4 NC_005259.1 + 61027 0.7 0.493872
Target:  5'- aCUCGGuGGCGGCGA---GGUCGAccgacgGGCg -3'
miRNA:   3'- cGAGUU-CCGCCGCUaguCCAGCU------CCG- -5'
23203 3' -56.4 NC_005259.1 + 60338 1.13 0.000594
Target:  5'- cGCUCAAGGCGGCGAUCAGGUCGAGGCc -3'
miRNA:   3'- -CGAGUUCCGCCGCUAGUCCAGCUCCG- -5'
23203 3' -56.4 NC_005259.1 + 54680 0.71 0.444971
Target:  5'- uGCUC--GGCGaGCGAgacCGuGUCGAGGCg -3'
miRNA:   3'- -CGAGuuCCGC-CGCUa--GUcCAGCUCCG- -5'
23203 3' -56.4 NC_005259.1 + 58772 0.71 0.426181
Target:  5'- cGCUgcGGGCGcuGUGcgCcGGUCGAGGCg -3'
miRNA:   3'- -CGAguUCCGC--CGCuaGuCCAGCUCCG- -5'
23203 3' -56.4 NC_005259.1 + 54502 0.71 0.40787
Target:  5'- gGCgggCAuGGCGGCGAUgugggguggCGGGUCGAguauccGGCc -3'
miRNA:   3'- -CGa--GUuCCGCCGCUA---------GUCCAGCU------CCG- -5'
23203 3' -56.4 NC_005259.1 + 62690 0.72 0.398902
Target:  5'- cCUCGAGuGCggugucccauccGGCGAUCAGG-CGGGGg -3'
miRNA:   3'- cGAGUUC-CG------------CCGCUAGUCCaGCUCCg -5'
23203 3' -56.4 NC_005259.1 + 58329 0.73 0.339773
Target:  5'- uCUC-GGGCaGCGAgaUCAGGUCGGuGGCc -3'
miRNA:   3'- cGAGuUCCGcCGCU--AGUCCAGCU-CCG- -5'
23203 3' -56.4 NC_005259.1 + 50430 0.73 0.331863
Target:  5'- gGCUC-GGGCaGCGGUgCGGGcUCGGGGUc -3'
miRNA:   3'- -CGAGuUCCGcCGCUA-GUCC-AGCUCCG- -5'
23203 3' -56.4 NC_005259.1 + 1556 0.73 0.323318
Target:  5'- cGUUCGGGGCGGUGAcgcugugagCgcgccccacaccgAGGUCGAGGUc -3'
miRNA:   3'- -CGAGUUCCGCCGCUa--------G-------------UCCAGCUCCG- -5'
23203 3' -56.4 NC_005259.1 + 31897 0.73 0.321783
Target:  5'- uCUCAAGGCccGGCGcgagcgccucaAUCucgucacgcacucgGGGUCGAGGCg -3'
miRNA:   3'- cGAGUUCCG--CCGC-----------UAG--------------UCCAGCUCCG- -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.