miRNA display CGI


Results 1 - 20 of 23 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
19537 3' -59.3 NC_004685.1 + 2754 0.66 0.607259
Target:  5'- aGCGUCUCGUCgggcacggugCCGCGGCgcgcgacgggcgGGGUagUGGUGa -3'
miRNA:   3'- -UGCGGAGCAG----------GGUGCUG------------UCCA--GCCAC- -5'
19537 3' -59.3 NC_004685.1 + 27841 0.66 0.607259
Target:  5'- aGCGCCUCGaccagUCCgCGCGGaGGGUCGc-- -3'
miRNA:   3'- -UGCGGAGC-----AGG-GUGCUgUCCAGCcac -5'
19537 3' -59.3 NC_004685.1 + 46983 0.66 0.586413
Target:  5'- -gGCCUCGUCCaCGcCGACcg--CGGUGa -3'
miRNA:   3'- ugCGGAGCAGG-GU-GCUGuccaGCCAC- -5'
19537 3' -59.3 NC_004685.1 + 39261 0.66 0.586413
Target:  5'- aGCGCCUCGUaaaucUCCuuGGC-GGUCauGGUGg -3'
miRNA:   3'- -UGCGGAGCA-----GGGugCUGuCCAG--CCAC- -5'
19537 3' -59.3 NC_004685.1 + 19026 0.66 0.576038
Target:  5'- -aGCCUUcaGUCUCGCGGCGGcaccGUCGGa- -3'
miRNA:   3'- ugCGGAG--CAGGGUGCUGUC----CAGCCac -5'
19537 3' -59.3 NC_004685.1 + 25866 0.66 0.576038
Target:  5'- gGCGag-CGgCCCGCG-CAGGUCGGg- -3'
miRNA:   3'- -UGCggaGCaGGGUGCuGUCCAGCCac -5'
19537 3' -59.3 NC_004685.1 + 24351 0.66 0.576038
Target:  5'- cCGCUUCaacaaCCGCGGCGGGUUGGc- -3'
miRNA:   3'- uGCGGAGcag--GGUGCUGUCCAGCCac -5'
19537 3' -59.3 NC_004685.1 + 7765 0.66 0.565704
Target:  5'- cCGCaUCGUCUgGCGuC-GGUCGGUGc -3'
miRNA:   3'- uGCGgAGCAGGgUGCuGuCCAGCCAC- -5'
19537 3' -59.3 NC_004685.1 + 36103 0.67 0.545191
Target:  5'- -gGCCUCGUCCCACGGugacCAcGcCGGa- -3'
miRNA:   3'- ugCGGAGCAGGGUGCU----GUcCaGCCac -5'
19537 3' -59.3 NC_004685.1 + 66665 0.67 0.514896
Target:  5'- cAC-CCUUG-CCCAcCGGCGGGauugUCGGUGg -3'
miRNA:   3'- -UGcGGAGCaGGGU-GCUGUCC----AGCCAC- -5'
19537 3' -59.3 NC_004685.1 + 59709 0.67 0.514896
Target:  5'- aGCaUCUCG-CCCACGGCGucGGUCGGc- -3'
miRNA:   3'- -UGcGGAGCaGGGUGCUGU--CCAGCCac -5'
19537 3' -59.3 NC_004685.1 + 63225 0.67 0.514896
Target:  5'- gAUGCUgUCGUCCCagcACGACGGGUUGu-- -3'
miRNA:   3'- -UGCGG-AGCAGGG---UGCUGUCCAGCcac -5'
19537 3' -59.3 NC_004685.1 + 16310 0.67 0.504947
Target:  5'- uACGCCgggCaUCCCGCgcugguGACGGG-CGGUGc -3'
miRNA:   3'- -UGCGGa--GcAGGGUG------CUGUCCaGCCAC- -5'
19537 3' -59.3 NC_004685.1 + 39458 0.67 0.495083
Target:  5'- cGCGCCUgGgUCCAguucCGGCAagagguGGUCGGUGa -3'
miRNA:   3'- -UGCGGAgCaGGGU----GCUGU------CCAGCCAC- -5'
19537 3' -59.3 NC_004685.1 + 55400 0.68 0.485306
Target:  5'- gGCGCCgcauUCGaUCCaCACGAU--GUCGGUGg -3'
miRNA:   3'- -UGCGG----AGC-AGG-GUGCUGucCAGCCAC- -5'
19537 3' -59.3 NC_004685.1 + 1822 0.68 0.466037
Target:  5'- cGCGCCgCGaUCCCAUGucgaccauCGGGaCGGUGa -3'
miRNA:   3'- -UGCGGaGC-AGGGUGCu-------GUCCaGCCAC- -5'
19537 3' -59.3 NC_004685.1 + 51671 0.68 0.4379
Target:  5'- aGCGCCUCGUcggugCCCGCGG-AGGUCa--- -3'
miRNA:   3'- -UGCGGAGCA-----GGGUGCUgUCCAGccac -5'
19537 3' -59.3 NC_004685.1 + 11569 0.68 0.4379
Target:  5'- uCGUgUCGgcugUCCACGGCAGGUCGcGg- -3'
miRNA:   3'- uGCGgAGCa---GGGUGCUGUCCAGC-Cac -5'
19537 3' -59.3 NC_004685.1 + 43698 0.69 0.410762
Target:  5'- uACGCCcgacUGUCCCGCGAgcucaccaAGGUCGGc- -3'
miRNA:   3'- -UGCGGa---GCAGGGUGCUg-------UCCAGCCac -5'
19537 3' -59.3 NC_004685.1 + 43470 0.69 0.384693
Target:  5'- cGCGCCUgaaGUCCgGCGuCGGGggCGGUa -3'
miRNA:   3'- -UGCGGAg--CAGGgUGCuGUCCa-GCCAc -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.