miRNA display CGI


Results 1 - 20 of 38 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
28024 3' -59.6 NC_005887.1 + 25494 0.78 0.061454
Target:  5'- aGCGGCGGCUCGGACGaugGCgCGGCGg -3'
miRNA:   3'- -CGCCGCUGAGCUUGUccaCGgGCCGU- -5'
28024 3' -59.6 NC_005887.1 + 30608 0.68 0.30403
Target:  5'- cGCGaGCaACUCGcGCAGcGcGUCCGGCAg -3'
miRNA:   3'- -CGC-CGcUGAGCuUGUC-CaCGGGCCGU- -5'
28024 3' -59.6 NC_005887.1 + 8685 0.68 0.311553
Target:  5'- --cGCGACggu-GCAGG-GCCCGGCGa -3'
miRNA:   3'- cgcCGCUGagcuUGUCCaCGGGCCGU- -5'
28024 3' -59.6 NC_005887.1 + 15242 0.68 0.32702
Target:  5'- aCGGCGGCcCGaAGCAGGcagccgcagugcUGCgCGGCGa -3'
miRNA:   3'- cGCCGCUGaGC-UUGUCC------------ACGgGCCGU- -5'
28024 3' -59.6 NC_005887.1 + 14704 0.67 0.351272
Target:  5'- cGCGGCGGg-CGGGCcGG-GCgCGGCGa -3'
miRNA:   3'- -CGCCGCUgaGCUUGuCCaCGgGCCGU- -5'
28024 3' -59.6 NC_005887.1 + 33838 0.67 0.368137
Target:  5'- cGCGGCGA-UCGAacgcauGCAGGgcguacgaGCCugCGGCAg -3'
miRNA:   3'- -CGCCGCUgAGCU------UGUCCa-------CGG--GCCGU- -5'
28024 3' -59.6 NC_005887.1 + 11827 0.66 0.402586
Target:  5'- gGCGGCGGCcuguucUCGAGCAGcacgggcggaucGUuuucgacGCUCGGCGg -3'
miRNA:   3'- -CGCCGCUG------AGCUUGUC------------CA-------CGGGCCGU- -5'
28024 3' -59.6 NC_005887.1 + 34105 0.66 0.431385
Target:  5'- aGCGGUGACgcCGAGC----GCUCGGCAg -3'
miRNA:   3'- -CGCCGCUGa-GCUUGuccaCGGGCCGU- -5'
28024 3' -59.6 NC_005887.1 + 37571 0.66 0.44093
Target:  5'- uUGGCGGCUCGc---GGaGCCgCGGCGg -3'
miRNA:   3'- cGCCGCUGAGCuuguCCaCGG-GCCGU- -5'
28024 3' -59.6 NC_005887.1 + 11605 0.68 0.30403
Target:  5'- uCGGCG-CUCGAcacGCAGGUGCagagCGuGCGc -3'
miRNA:   3'- cGCCGCuGAGCU---UGUCCACGg---GC-CGU- -5'
28024 3' -59.6 NC_005887.1 + 41925 0.69 0.282303
Target:  5'- uGCuGaGCGGCUCGcAGCuGaGcUGCCCGGCGu -3'
miRNA:   3'- -CG-C-CGCUGAGC-UUGuC-C-ACGGGCCGU- -5'
28024 3' -59.6 NC_005887.1 + 14344 0.76 0.086443
Target:  5'- cGCGGCGAUcgUGaAGCAGcGUGCCgGGCAc -3'
miRNA:   3'- -CGCCGCUGa-GC-UUGUC-CACGGgCCGU- -5'
28024 3' -59.6 NC_005887.1 + 41496 0.75 0.099496
Target:  5'- aUGGCaccGGCUCGAACGgcaagucgacGGUGCUCGGCAa -3'
miRNA:   3'- cGCCG---CUGAGCUUGU----------CCACGGGCCGU- -5'
28024 3' -59.6 NC_005887.1 + 35340 0.72 0.177081
Target:  5'- cGCGGCGGCcggccaCGAGCuucacGCCCGGCAc -3'
miRNA:   3'- -CGCCGCUGa-----GCUUGucca-CGGGCCGU- -5'
28024 3' -59.6 NC_005887.1 + 26095 0.72 0.181391
Target:  5'- cGCGGCGuuucaugGCgUCGAGCAGGaUGUCCuGCAc -3'
miRNA:   3'- -CGCCGC-------UG-AGCUUGUCC-ACGGGcCGU- -5'
28024 3' -59.6 NC_005887.1 + 18062 0.71 0.213115
Target:  5'- -gGGCGAUcgUGAACaAGGcgacGCCCGGCAa -3'
miRNA:   3'- cgCCGCUGa-GCUUG-UCCa---CGGGCCGU- -5'
28024 3' -59.6 NC_005887.1 + 14207 0.7 0.23642
Target:  5'- cGCGGC--CUCGGACAGGgcgGCgCCGcGCu -3'
miRNA:   3'- -CGCCGcuGAGCUUGUCCa--CG-GGC-CGu -5'
28024 3' -59.6 NC_005887.1 + 13086 0.7 0.242571
Target:  5'- cGCGGCG-CUCGAucGCGGaGUGCUgcagGGCGu -3'
miRNA:   3'- -CGCCGCuGAGCU--UGUC-CACGGg---CCGU- -5'
28024 3' -59.6 NC_005887.1 + 41597 0.69 0.275339
Target:  5'- aGCGGCGGCc----CAGGUGCggcggCCGGCGc -3'
miRNA:   3'- -CGCCGCUGagcuuGUCCACG-----GGCCGU- -5'
28024 3' -59.6 NC_005887.1 + 27983 1.1 0.000253
Target:  5'- aGCGGCGACUCGAACAGGUGCCCGGCAc -3'
miRNA:   3'- -CGCCGCUGAGCUUGUCCACGGGCCGU- -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.