miRNA display CGI


Results 1 - 20 of 97 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
19233 3' -54.7 NC_004684.1 + 23008 0.69 0.599848
Target:  5'- -gGGCCGACugGccGCC-GUCGGCAg -3'
miRNA:   3'- caCCGGCUGugUcuUGGuCAGCUGUg -5'
19233 3' -54.7 NC_004684.1 + 50037 0.71 0.490393
Target:  5'- cGUGGCCGGUGCcuggcuccaggccaGGAACCGGUCGagcuGCGCc -3'
miRNA:   3'- -CACCGGCUGUG--------------UCUUGGUCAGC----UGUG- -5'
19233 3' -54.7 NC_004684.1 + 31915 0.71 0.493464
Target:  5'- -cGGUCGGCAUucuGCCGGUCGGgGCu -3'
miRNA:   3'- caCCGGCUGUGucuUGGUCAGCUgUG- -5'
19233 3' -54.7 NC_004684.1 + 24790 0.71 0.514158
Target:  5'- cUGGUCGAUACGGccaAGgCGGUCGGCAa -3'
miRNA:   3'- cACCGGCUGUGUC---UUgGUCAGCUGUg -5'
19233 3' -54.7 NC_004684.1 + 65765 0.71 0.514158
Target:  5'- uUGGCCGcCGCGc-GCCGGUgGGCGCg -3'
miRNA:   3'- cACCGGCuGUGUcuUGGUCAgCUGUG- -5'
19233 3' -54.7 NC_004684.1 + 22727 0.7 0.524637
Target:  5'- cGUGGCUGGCACGcgcGACCGGUuCGugGa -3'
miRNA:   3'- -CACCGGCUGUGUc--UUGGUCA-GCugUg -5'
19233 3' -54.7 NC_004684.1 + 46772 0.7 0.556529
Target:  5'- -aGG-CGGCGCAGGAaccgucgaccguCCGGUCGugGCg -3'
miRNA:   3'- caCCgGCUGUGUCUU------------GGUCAGCugUG- -5'
19233 3' -54.7 NC_004684.1 + 12730 0.7 0.578101
Target:  5'- -aGGCCGugGacCAG-GCCgaGGUCGACGCc -3'
miRNA:   3'- caCCGGCugU--GUCuUGG--UCAGCUGUG- -5'
19233 3' -54.7 NC_004684.1 + 462 0.69 0.599848
Target:  5'- cGUGGCCGugGaCAaccGGGCCagcgaGGUCGGCAg -3'
miRNA:   3'- -CACCGGCugU-GU---CUUGG-----UCAGCUGUg -5'
19233 3' -54.7 NC_004684.1 + 10498 0.71 0.473161
Target:  5'- -cGGCCGACGCAcuGGGCCgccgacGGUCaGCGCg -3'
miRNA:   3'- caCCGGCUGUGU--CUUGG------UCAGcUGUG- -5'
19233 3' -54.7 NC_004684.1 + 66343 0.72 0.463168
Target:  5'- gGUGacGCCGGgGCGGGcgGCCAGggCGACGCg -3'
miRNA:   3'- -CAC--CGGCUgUGUCU--UGGUCa-GCUGUG- -5'
19233 3' -54.7 NC_004684.1 + 19338 0.72 0.463168
Target:  5'- cGUGGCCGagcgggagGCGCuGAuCCAG-CGGCGCa -3'
miRNA:   3'- -CACCGGC--------UGUGuCUuGGUCaGCUGUG- -5'
19233 3' -54.7 NC_004684.1 + 3628 0.78 0.191919
Target:  5'- aGUGGCCGAagcgcgccacCugGGucauGCCGGUCGGCACc -3'
miRNA:   3'- -CACCGGCU----------GugUCu---UGGUCAGCUGUG- -5'
19233 3' -54.7 NC_004684.1 + 6682 0.78 0.197103
Target:  5'- aGUGGCCuGCACAGGucgaccugGCCAccGUCGGCGCg -3'
miRNA:   3'- -CACCGGcUGUGUCU--------UGGU--CAGCUGUG- -5'
19233 3' -54.7 NC_004684.1 + 24404 0.76 0.27619
Target:  5'- -aGGCCGACACcaAGAagGCCcaggccgaAGUCGACGCc -3'
miRNA:   3'- caCCGGCUGUG--UCU--UGG--------UCAGCUGUG- -5'
19233 3' -54.7 NC_004684.1 + 3983 0.74 0.328395
Target:  5'- cUGGCCgGugGCAGcuCCAGUCGAUguGCg -3'
miRNA:   3'- cACCGG-CugUGUCuuGGUCAGCUG--UG- -5'
19233 3' -54.7 NC_004684.1 + 42213 0.74 0.344592
Target:  5'- gGUGGCCGACGUGGccGCCGguGUCGGCACc -3'
miRNA:   3'- -CACCGGCUGUGUCu-UGGU--CAGCUGUG- -5'
19233 3' -54.7 NC_004684.1 + 50981 0.73 0.378678
Target:  5'- -aGGCCGACcccugGCAGAugUAGUUGAC-Cg -3'
miRNA:   3'- caCCGGCUG-----UGUCUugGUCAGCUGuG- -5'
19233 3' -54.7 NC_004684.1 + 42055 0.73 0.387546
Target:  5'- aUGGCCGACggGCAGAaagACCAGUC-ACGg -3'
miRNA:   3'- cACCGGCUG--UGUCU---UGGUCAGcUGUg -5'
19233 3' -54.7 NC_004684.1 + 6743 0.72 0.433875
Target:  5'- cUGGCUGGCcCGGAGCC-GUCGgguGCACg -3'
miRNA:   3'- cACCGGCUGuGUCUUGGuCAGC---UGUG- -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.