miRNA display CGI


Results 1 - 15 of 15 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
23187 3' -57.5 NC_005259.1 + 50298 0.66 0.642398
Target:  5'- aGCacgGCGGucUGaccucgaUCAUCGgGCCGCCCGg -3'
miRNA:   3'- -CGa--CGCU--ACg------AGUAGCaCGGCGGGUa -5'
23187 3' -57.5 NC_005259.1 + 32929 0.66 0.635902
Target:  5'- uGCUGUG-UGCUCGUCGcggUGCuguugagcgacagcaCGCCCu- -3'
miRNA:   3'- -CGACGCuACGAGUAGC---ACG---------------GCGGGua -5'
23187 3' -57.5 NC_005259.1 + 23459 0.66 0.620742
Target:  5'- gGCUGCGAgcggguUGCUCGcCGgGCCacccuuGCCCGc -3'
miRNA:   3'- -CGACGCU------ACGAGUaGCaCGG------CGGGUa -5'
23187 3' -57.5 NC_005259.1 + 31636 0.66 0.603441
Target:  5'- -gUGCGAguaGCUCAcgcccUCGgcaccgcccgccgcGCCGCCCAUg -3'
miRNA:   3'- cgACGCUa--CGAGU-----AGCa-------------CGGCGGGUA- -5'
23187 3' -57.5 NC_005259.1 + 56010 0.66 0.599124
Target:  5'- --cGUGGUGCUCGcguucgcacUCGgcuacgccGCCGCCCGg -3'
miRNA:   3'- cgaCGCUACGAGU---------AGCa-------CGGCGGGUa -5'
23187 3' -57.5 NC_005259.1 + 67638 0.67 0.566921
Target:  5'- aCUGgGccGCUCGcCGcGCCGCCCGc -3'
miRNA:   3'- cGACgCuaCGAGUaGCaCGGCGGGUa -5'
23187 3' -57.5 NC_005259.1 + 10309 0.67 0.545696
Target:  5'- --cGCGGggucgGCUCGUCGccGCCGCCg-- -3'
miRNA:   3'- cgaCGCUa----CGAGUAGCa-CGGCGGgua -5'
23187 3' -57.5 NC_005259.1 + 52477 0.68 0.504081
Target:  5'- cGCUGCGAgcgucGCUCAaggGUGC-GCCCGa -3'
miRNA:   3'- -CGACGCUa----CGAGUag-CACGgCGGGUa -5'
23187 3' -57.5 NC_005259.1 + 26028 0.68 0.483791
Target:  5'- --cGgGAUGCcggggaUCAUCGuUGCCGCCCc- -3'
miRNA:   3'- cgaCgCUACG------AGUAGC-ACGGCGGGua -5'
23187 3' -57.5 NC_005259.1 + 2831 0.69 0.425457
Target:  5'- uGC-GCGcAUGCUCAUCGgcaccGCUGCCgGUg -3'
miRNA:   3'- -CGaCGC-UACGAGUAGCa----CGGCGGgUA- -5'
23187 3' -57.5 NC_005259.1 + 38866 0.69 0.425457
Target:  5'- gGCUGCGAUaccucgggcaGCUCGacCGgGCCGCCUAc -3'
miRNA:   3'- -CGACGCUA----------CGAGUa-GCaCGGCGGGUa -5'
23187 3' -57.5 NC_005259.1 + 55538 0.69 0.416146
Target:  5'- cGCgGCGcugGUGCUCAcCGcGCUGCCCGa -3'
miRNA:   3'- -CGaCGC---UACGAGUaGCaCGGCGGGUa -5'
23187 3' -57.5 NC_005259.1 + 1854 0.7 0.388091
Target:  5'- cGCUGUGAgccGCUUGUCGaugguggcggccaUGCCGCCgAUg -3'
miRNA:   3'- -CGACGCUa--CGAGUAGC-------------ACGGCGGgUA- -5'
23187 3' -57.5 NC_005259.1 + 14395 0.73 0.25173
Target:  5'- aGCUGgucauucuCGGUGCUgAUC-UGCCGCCCAc -3'
miRNA:   3'- -CGAC--------GCUACGAgUAGcACGGCGGGUa -5'
23187 3' -57.5 NC_005259.1 + 2330 1.08 0.000828
Target:  5'- uGCUGCGAUGCUCAUCGUGCCGCCCAUg -3'
miRNA:   3'- -CGACGCUACGAGUAGCACGGCGGGUA- -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.