miRNA display CGI


Results 1 - 20 of 46 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
11615 3' -57.2 NC_003085.1 + 46759 1.12 0.000447
Target:  5'- cCGAAGUCCUCGCCGGAGUCCACCACCu -3'
miRNA:   3'- -GCUUCAGGAGCGGCCUCAGGUGGUGG- -5'
11615 3' -57.2 NC_003085.1 + 32358 0.74 0.202633
Target:  5'- aGgcGUCCUUGCCGuGGUCC-CUGCCg -3'
miRNA:   3'- gCuuCAGGAGCGGCcUCAGGuGGUGG- -5'
11615 3' -57.2 NC_003085.1 + 42900 0.74 0.207998
Target:  5'- cCGAGGUCCUgCGCgUGGAuUCCACCguugACCg -3'
miRNA:   3'- -GCUUCAGGA-GCG-GCCUcAGGUGG----UGG- -5'
11615 3' -57.2 NC_003085.1 + 41947 0.73 0.23669
Target:  5'- ---cGUCCUCGUCGGugauGUCCugCaACCg -3'
miRNA:   3'- gcuuCAGGAGCGGCCu---CAGGugG-UGG- -5'
11615 3' -57.2 NC_003085.1 + 25209 0.73 0.255451
Target:  5'- ----cUCCUUGCCGGAGUUCugCAgCa -3'
miRNA:   3'- gcuucAGGAGCGGCCUCAGGugGUgG- -5'
11615 3' -57.2 NC_003085.1 + 26564 0.72 0.289405
Target:  5'- cCGGcAG-CCUcCGCCGGAGUCgCACCAg- -3'
miRNA:   3'- -GCU-UCaGGA-GCGGCCUCAG-GUGGUgg -5'
11615 3' -57.2 NC_003085.1 + 22957 0.72 0.289405
Target:  5'- gCGAAG-CCggacgaGCCGGcccAGUCUGCCACCc -3'
miRNA:   3'- -GCUUCaGGag----CGGCC---UCAGGUGGUGG- -5'
11615 3' -57.2 NC_003085.1 + 46666 0.72 0.310672
Target:  5'- cCGAGGcgCUUCGCCgccgccuGGAGcgCCGCCGCUg -3'
miRNA:   3'- -GCUUCa-GGAGCGG-------CCUCa-GGUGGUGG- -5'
11615 3' -57.2 NC_003085.1 + 11202 0.71 0.350904
Target:  5'- cCGucGUCgUCGCgCGGaAGUagguggCCACCGCCg -3'
miRNA:   3'- -GCuuCAGgAGCG-GCC-UCA------GGUGGUGG- -5'
11615 3' -57.2 NC_003085.1 + 12466 0.7 0.364266
Target:  5'- uCGAAGUCCccaucaaggcgccgUCGCUcacgaaucagagGGAGcacuacagcagccUCCACCGCCa -3'
miRNA:   3'- -GCUUCAGG--------------AGCGG------------CCUC-------------AGGUGGUGG- -5'
11615 3' -57.2 NC_003085.1 + 753 0.7 0.367661
Target:  5'- aGAGGUgCUgGUgGGcgAGUCCGCCACg -3'
miRNA:   3'- gCUUCAgGAgCGgCC--UCAGGUGGUGg -5'
11615 3' -57.2 NC_003085.1 + 18923 0.7 0.402789
Target:  5'- uGGAGUUgUCGCCauGAGcgCCAUCGCCu -3'
miRNA:   3'- gCUUCAGgAGCGGc-CUCa-GGUGGUGG- -5'
11615 3' -57.2 NC_003085.1 + 45799 0.7 0.402789
Target:  5'- uCGAGGUcaaCCUCGUCGuGccacuccGUCUGCCACCg -3'
miRNA:   3'- -GCUUCA---GGAGCGGC-Cu------CAGGUGGUGG- -5'
11615 3' -57.2 NC_003085.1 + 25322 0.69 0.411898
Target:  5'- ---cGUCauaGCCGGAGUaCCAgCCGCCg -3'
miRNA:   3'- gcuuCAGgagCGGCCUCA-GGU-GGUGG- -5'
11615 3' -57.2 NC_003085.1 + 46436 0.69 0.411898
Target:  5'- uGGAGUaguggaCCUCGaagucgagcacCCaGAGUCCAUCACCa -3'
miRNA:   3'- gCUUCA------GGAGC-----------GGcCUCAGGUGGUGG- -5'
11615 3' -57.2 NC_003085.1 + 38105 0.69 0.421133
Target:  5'- aCGguGUCCUgGCUGacgccGAGuucuUCCGCCACCu -3'
miRNA:   3'- -GCuuCAGGAgCGGC-----CUC----AGGUGGUGG- -5'
11615 3' -57.2 NC_003085.1 + 8669 0.69 0.430492
Target:  5'- gCGuGG-CCUugggCGCCGGGGUgCCGuCCGCCa -3'
miRNA:   3'- -GCuUCaGGA----GCGGCCUCA-GGU-GGUGG- -5'
11615 3' -57.2 NC_003085.1 + 48319 0.69 0.439971
Target:  5'- -cGAGU-CUCGgCGGAGUCCcCCAgCCg -3'
miRNA:   3'- gcUUCAgGAGCgGCCUCAGGuGGU-GG- -5'
11615 3' -57.2 NC_003085.1 + 27305 0.69 0.439971
Target:  5'- uGcuGUCCcuucaUCGCCuGGG-CCACCACCu -3'
miRNA:   3'- gCuuCAGG-----AGCGGcCUCaGGUGGUGG- -5'
11615 3' -57.2 NC_003085.1 + 11292 0.69 0.448604
Target:  5'- aGggGaacaCCUgCGCCgcggcggGGAGcgCCACCACCa -3'
miRNA:   3'- gCuuCa---GGA-GCGG-------CCUCa-GGUGGUGG- -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.