miRNA display CGI


Results 1 - 20 of 25 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
30694 3' -60.8 NC_006552.1 + 23381 0.66 0.475499
Target:  5'- --cGCCGucgcccgcacacucuGGGCAuCCAGGGUgCGGCUCg -3'
miRNA:   3'- guuCGGC---------------CUCGU-GGUCCCG-GUCGAGg -5'
30694 3' -60.8 NC_006552.1 + 56772 0.66 0.471614
Target:  5'- uCAGGCC---GCGCCAGGcGCgCAGCagUCCc -3'
miRNA:   3'- -GUUCGGccuCGUGGUCC-CG-GUCG--AGG- -5'
30694 3' -60.8 NC_006552.1 + 31034 0.66 0.471614
Target:  5'- aGAGCCuGGccgcccAGCAgCAGGGCgCGG-UCCa -3'
miRNA:   3'- gUUCGG-CC------UCGUgGUCCCG-GUCgAGG- -5'
30694 3' -60.8 NC_006552.1 + 51876 0.66 0.461972
Target:  5'- --uGCCGGuucGgACUGGGGCCGGgCUgCa -3'
miRNA:   3'- guuCGGCCu--CgUGGUCCCGGUC-GAgG- -5'
30694 3' -60.8 NC_006552.1 + 21207 0.66 0.461972
Target:  5'- --uGCCGcugucGGCgACCAGGGCCAGgCgaaCCu -3'
miRNA:   3'- guuCGGCc----UCG-UGGUCCCGGUC-Ga--GG- -5'
30694 3' -60.8 NC_006552.1 + 53549 0.66 0.443006
Target:  5'- --cGCCGucGCccuGCCAGaGGcCCAGCUUCa -3'
miRNA:   3'- guuCGGCcuCG---UGGUC-CC-GGUCGAGG- -5'
30694 3' -60.8 NC_006552.1 + 32494 0.66 0.443006
Target:  5'- --cGCCGGccGGCG-CGGGGCCGGUg-- -3'
miRNA:   3'- guuCGGCC--UCGUgGUCCCGGUCGagg -5'
30694 3' -60.8 NC_006552.1 + 13143 0.66 0.443006
Target:  5'- uCGAuCCGGAgGCGCCgAGGGUCgaGGCUgCa -3'
miRNA:   3'- -GUUcGGCCU-CGUGG-UCCCGG--UCGAgG- -5'
30694 3' -60.8 NC_006552.1 + 3825 0.66 0.433689
Target:  5'- gGAGCCGGGccauguuuuggcGCGCCGGcGG-CGGCUacaCCa -3'
miRNA:   3'- gUUCGGCCU------------CGUGGUC-CCgGUCGA---GG- -5'
30694 3' -60.8 NC_006552.1 + 62185 0.66 0.433689
Target:  5'- gGAGCgcgCGGAGCagaucgugcuccACCAGGGCgAGC-Cg -3'
miRNA:   3'- gUUCG---GCCUCG------------UGGUCCCGgUCGaGg -5'
30694 3' -60.8 NC_006552.1 + 6846 0.66 0.424486
Target:  5'- --cGCgGGGGCaguuucGCCGuGGCCAGC-CCa -3'
miRNA:   3'- guuCGgCCUCG------UGGUcCCGGUCGaGG- -5'
30694 3' -60.8 NC_006552.1 + 15925 0.67 0.388879
Target:  5'- aCGGGCUGcGGCGCUuacguGGGCCuGCaUCCc -3'
miRNA:   3'- -GUUCGGCcUCGUGGu----CCCGGuCG-AGG- -5'
30694 3' -60.8 NC_006552.1 + 40462 0.67 0.380287
Target:  5'- -cAGCCG--GCGCC-GGGCCuGCUCg -3'
miRNA:   3'- guUCGGCcuCGUGGuCCCGGuCGAGg -5'
30694 3' -60.8 NC_006552.1 + 23817 0.68 0.36349
Target:  5'- -cAGCCGGAaaacagGCGCCacucAGGGUCAGC-Ca -3'
miRNA:   3'- guUCGGCCU------CGUGG----UCCCGGUCGaGg -5'
30694 3' -60.8 NC_006552.1 + 38966 0.68 0.339274
Target:  5'- aCAGGUgGcGAaacuGCGCCGGucGGcCCAGCUCCg -3'
miRNA:   3'- -GUUCGgC-CU----CGUGGUC--CC-GGUCGAGG- -5'
30694 3' -60.8 NC_006552.1 + 48947 0.68 0.331466
Target:  5'- gGAGCUgGGAGUGCCAGuGGCgCAGUugUCUc -3'
miRNA:   3'- gUUCGG-CCUCGUGGUC-CCG-GUCG--AGG- -5'
30694 3' -60.8 NC_006552.1 + 49109 0.68 0.323791
Target:  5'- --uGCuCGGAGCGCUuuGGGGCCgccGGgaCCg -3'
miRNA:   3'- guuCG-GCCUCGUGG--UCCCGG---UCgaGG- -5'
30694 3' -60.8 NC_006552.1 + 38288 0.69 0.301566
Target:  5'- --uGCCGGccagcGGCACCAGggaagucguGGCCaucagaAGCUCCu -3'
miRNA:   3'- guuCGGCC-----UCGUGGUC---------CCGG------UCGAGG- -5'
30694 3' -60.8 NC_006552.1 + 13957 0.69 0.280536
Target:  5'- gAAGCCGccgauGAGCGCCuGcGCCAGCUUUc -3'
miRNA:   3'- gUUCGGC-----CUCGUGGuCcCGGUCGAGG- -5'
30694 3' -60.8 NC_006552.1 + 13337 0.69 0.279856
Target:  5'- uCGAGCaagCGGAGCGCCAGcGgcaggaguuggaaGCCAGCaagCCg -3'
miRNA:   3'- -GUUCG---GCCUCGUGGUC-C-------------CGGUCGa--GG- -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.