miRNA display CGI


Results 1 - 20 of 399 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
29409 3' -64.1 NC_006151.1 + 654 0.68 0.415271
Target:  5'- uCCGGGgCGCGGC-CGGGgcgggcuccgcggauCGCAuCGGCg -3'
miRNA:   3'- -GGCUCgGCGCCGaGCCC---------------GCGUcGCUG- -5'
29409 3' -64.1 NC_006151.1 + 720 0.66 0.564381
Target:  5'- aCCGGGgguCCGCGGg-CGGGgGCuuccgcuccGCGGCg -3'
miRNA:   3'- -GGCUC---GGCGCCgaGCCCgCGu--------CGCUG- -5'
29409 3' -64.1 NC_006151.1 + 1801 0.66 0.554866
Target:  5'- aCCGGGCCGgGGaggCaGGCGcCGGgGAg -3'
miRNA:   3'- -GGCUCGGCgCCga-GcCCGC-GUCgCUg -5'
29409 3' -64.1 NC_006151.1 + 2204 0.66 0.535984
Target:  5'- gCGGGCCgGUGGgUCuccacGGCGCccccGGCGGCg -3'
miRNA:   3'- gGCUCGG-CGCCgAGc----CCGCG----UCGCUG- -5'
29409 3' -64.1 NC_006151.1 + 2271 0.67 0.480852
Target:  5'- cCCaGAGCaCGgcCGGCg-GGGCGCccgcGGCGGCg -3'
miRNA:   3'- -GG-CUCG-GC--GCCGagCCCGCG----UCGCUG- -5'
29409 3' -64.1 NC_006151.1 + 2333 0.67 0.471926
Target:  5'- gCG-GCCuCGGCgUCGGGCuccaGCAGCGcCg -3'
miRNA:   3'- gGCuCGGcGCCG-AGCCCG----CGUCGCuG- -5'
29409 3' -64.1 NC_006151.1 + 2399 0.66 0.526627
Target:  5'- uCgGGGCCGCGgaGCUC-GGCGaggcccCGGCGGCc -3'
miRNA:   3'- -GgCUCGGCGC--CGAGcCCGC------GUCGCUG- -5'
29409 3' -64.1 NC_006151.1 + 2447 0.69 0.379898
Target:  5'- aCGGGCCGCaGCg-GGGCGCcgagcccccAGCGGu -3'
miRNA:   3'- gGCUCGGCGcCGagCCCGCG---------UCGCUg -5'
29409 3' -64.1 NC_006151.1 + 2527 0.68 0.420249
Target:  5'- cCCGAGCC-CGaGCgCGGaGCGCuGGCGGg -3'
miRNA:   3'- -GGCUCGGcGC-CGaGCC-CGCG-UCGCUg -5'
29409 3' -64.1 NC_006151.1 + 2583 0.7 0.342224
Target:  5'- -gGAGCaCGCgcuGGCgguaGGcGCGCGGCGGCa -3'
miRNA:   3'- ggCUCG-GCG---CCGag--CC-CGCGUCGCUG- -5'
29409 3' -64.1 NC_006151.1 + 2628 0.66 0.564381
Target:  5'- uCCgGGGCC-CGGCgCGGGUGCucaccguguAGCGcACg -3'
miRNA:   3'- -GG-CUCGGcGCCGaGCCCGCG---------UCGC-UG- -5'
29409 3' -64.1 NC_006151.1 + 2782 0.72 0.257259
Target:  5'- gCgGAGCuCGCGGCaccCGGGC-CAGCGcACg -3'
miRNA:   3'- -GgCUCG-GCGCCGa--GCCCGcGUCGC-UG- -5'
29409 3' -64.1 NC_006151.1 + 2932 0.7 0.342224
Target:  5'- gCCGAGCCGCGaGCagagguacUCcacGGCGCcGGCGAa -3'
miRNA:   3'- -GGCUCGGCGC-CG--------AGc--CCGCG-UCGCUg -5'
29409 3' -64.1 NC_006151.1 + 3103 0.74 0.188559
Target:  5'- gCCGAgaggccGCCGCGGCgcgggucccaggcCGGGCGCGG-GGCg -3'
miRNA:   3'- -GGCU------CGGCGCCGa------------GCCCGCGUCgCUG- -5'
29409 3' -64.1 NC_006151.1 + 3244 0.72 0.263133
Target:  5'- gCGGcGCgGCGGCggagCgGGGCGCcGCGGCg -3'
miRNA:   3'- gGCU-CGgCGCCGa---G-CCCGCGuCGCUG- -5'
29409 3' -64.1 NC_006151.1 + 3352 0.67 0.480852
Target:  5'- aCGAgGgCGCGGgccacCUCGGGCGggcaguaGGCGGCg -3'
miRNA:   3'- gGCU-CgGCGCC-----GAGCCCGCg------UCGCUG- -5'
29409 3' -64.1 NC_006151.1 + 3430 0.73 0.214071
Target:  5'- gCCGGGaCGCGGCggaagccgccgUCGGGCGCGGgGuGCu -3'
miRNA:   3'- -GGCUCgGCGCCG-----------AGCCCGCGUCgC-UG- -5'
29409 3' -64.1 NC_006151.1 + 3678 0.72 0.263133
Target:  5'- cCCgGGGCgGCGGgCccCGGGCGC-GCGGCg -3'
miRNA:   3'- -GG-CUCGgCGCC-Ga-GCCCGCGuCGCUG- -5'
29409 3' -64.1 NC_006151.1 + 3736 0.69 0.379898
Target:  5'- uCCGGGCCgGCGGCgggggagCuGGCGUAGcCGGa -3'
miRNA:   3'- -GGCUCGG-CGCCGa------GcCCGCGUC-GCUg -5'
29409 3' -64.1 NC_006151.1 + 3907 0.69 0.3645
Target:  5'- aCGAgGCCGgGcuGCUCGGGCcagaGCGGgGGCa -3'
miRNA:   3'- gGCU-CGGCgC--CGAGCCCG----CGUCgCUG- -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.