miRNA display CGI


Results 1 - 19 of 19 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
11296 3' -59.7 NC_003083.1 + 84749 0.66 0.679288
Target:  5'- aGACACGACGCaauuuaccgccgaCGcGUGCGucuGCGCUGUc -3'
miRNA:   3'- gUUGUGCUGCG-------------GC-CACGU---CGCGGCGu -5'
11296 3' -59.7 NC_003083.1 + 1822 0.66 0.679288
Target:  5'- -uGC-CGuCGUCGGUGCAcgccggcGuCGCCGCAg -3'
miRNA:   3'- guUGuGCuGCGGCCACGU-------C-GCGGCGU- -5'
11296 3' -59.7 NC_003083.1 + 106828 0.66 0.660046
Target:  5'- aGACGCGuACGUugacuggagCGGUGUgcguauguGCGCCGCGc -3'
miRNA:   3'- gUUGUGC-UGCG---------GCCACGu-------CGCGGCGU- -5'
11296 3' -59.7 NC_003083.1 + 99806 0.66 0.660046
Target:  5'- cUAACGCGuuCaCCuGUGCGGCGUCGUAa -3'
miRNA:   3'- -GUUGUGCu-GcGGcCACGUCGCGGCGU- -5'
11296 3' -59.7 NC_003083.1 + 57846 0.66 0.660046
Target:  5'- ---gGCGACGuuGGUGCGuCGCCa-- -3'
miRNA:   3'- guugUGCUGCggCCACGUcGCGGcgu -5'
11296 3' -59.7 NC_003083.1 + 20970 0.67 0.639705
Target:  5'- -uGCACGGCGgCGGUagauuGCAGgGUgGCGu -3'
miRNA:   3'- guUGUGCUGCgGCCA-----CGUCgCGgCGU- -5'
11296 3' -59.7 NC_003083.1 + 117324 0.67 0.609169
Target:  5'- uGGCGCGACGaCGGUGCAcuCGUCGg- -3'
miRNA:   3'- gUUGUGCUGCgGCCACGUc-GCGGCgu -5'
11296 3' -59.7 NC_003083.1 + 112345 0.67 0.608153
Target:  5'- -cGCGCGAucgacacCGUCGGUGgAGCGCaCGUu -3'
miRNA:   3'- guUGUGCU-------GCGGCCACgUCGCG-GCGu -5'
11296 3' -59.7 NC_003083.1 + 31913 0.67 0.599015
Target:  5'- gGACACGuauuACGgUGGUGUAGUGgCGCu -3'
miRNA:   3'- gUUGUGC----UGCgGCCACGUCGCgGCGu -5'
11296 3' -59.7 NC_003083.1 + 79372 0.68 0.568724
Target:  5'- cCAGCACGAcCGCCGGUG-AGUcgaGCCa-- -3'
miRNA:   3'- -GUUGUGCU-GCGGCCACgUCG---CGGcgu -5'
11296 3' -59.7 NC_003083.1 + 106783 0.68 0.568724
Target:  5'- aCAGCACGguuGCGUauugGCAgGCGCCGCAg -3'
miRNA:   3'- -GUUGUGC---UGCGgccaCGU-CGCGGCGU- -5'
11296 3' -59.7 NC_003083.1 + 56769 0.68 0.558706
Target:  5'- uCAAUGCGucuuUGCCGagcGUGuCGGCGCCGCc -3'
miRNA:   3'- -GUUGUGCu---GCGGC---CAC-GUCGCGGCGu -5'
11296 3' -59.7 NC_003083.1 + 35521 0.69 0.509488
Target:  5'- uGACACGcCGCCuGUGaaaCGCCGCAa -3'
miRNA:   3'- gUUGUGCuGCGGcCACgucGCGGCGU- -5'
11296 3' -59.7 NC_003083.1 + 47379 0.69 0.503699
Target:  5'- gAACAgugcgcguguUGACGUCGGUGgcuccauauuugggcCAGCGCUGCAu -3'
miRNA:   3'- gUUGU----------GCUGCGGCCAC---------------GUCGCGGCGU- -5'
11296 3' -59.7 NC_003083.1 + 92239 0.69 0.499855
Target:  5'- -uACugGcACGCCGG-GCAGCG-CGUAu -3'
miRNA:   3'- guUGugC-UGCGGCCaCGUCGCgGCGU- -5'
11296 3' -59.7 NC_003083.1 + 88254 0.7 0.452996
Target:  5'- aAACGCaGCGCagcgGGcGCGGUGCCGCGa -3'
miRNA:   3'- gUUGUGcUGCGg---CCaCGUCGCGGCGU- -5'
11296 3' -59.7 NC_003083.1 + 41287 0.73 0.313973
Target:  5'- aAGCACGGCGUaaUGGUGCGGCGCg--- -3'
miRNA:   3'- gUUGUGCUGCG--GCCACGUCGCGgcgu -5'
11296 3' -59.7 NC_003083.1 + 27700 0.74 0.273248
Target:  5'- cCAAcCACGcACGCUGGc-CGGCGCCGCAa -3'
miRNA:   3'- -GUU-GUGC-UGCGGCCacGUCGCGGCGU- -5'
11296 3' -59.7 NC_003083.1 + 114386 1.08 0.001065
Target:  5'- aCAACACGACGCCGGUGCAGCGCCGCAg -3'
miRNA:   3'- -GUUGUGCUGCGGCCACGUCGCGGCGU- -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.