miRNA display CGI


Results 1 - 20 of 22 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
7238 3' -54 NC_001900.1 + 26678 0.66 0.751531
Target:  5'- aGGACCGGAUCCc-CGAGagg-GGGCc -3'
miRNA:   3'- aCUUGGUCUAGGucGCUCgcuaCCUG- -5'
7238 3' -54 NC_001900.1 + 44871 0.66 0.751531
Target:  5'- cGAGCCcacgaccucucGGAUCuCAuCcAGCGAUGGGCa -3'
miRNA:   3'- aCUUGG-----------UCUAG-GUcGcUCGCUACCUG- -5'
7238 3' -54 NC_001900.1 + 39702 0.66 0.740857
Target:  5'- gGAA-CAGAUCCAGCaGAgccagcGCGAUGaGAUc -3'
miRNA:   3'- aCUUgGUCUAGGUCG-CU------CGCUAC-CUG- -5'
7238 3' -54 NC_001900.1 + 15908 0.66 0.730068
Target:  5'- cUGGGCCAGggCCAGa-AGUgguucgcccuGAUGGACc -3'
miRNA:   3'- -ACUUGGUCuaGGUCgcUCG----------CUACCUG- -5'
7238 3' -54 NC_001900.1 + 665 0.66 0.708193
Target:  5'- cGcGCCGGAUCCGGUGAaaaucCGGUGuGAUu -3'
miRNA:   3'- aCuUGGUCUAGGUCGCUc----GCUAC-CUG- -5'
7238 3' -54 NC_001900.1 + 23236 0.67 0.690462
Target:  5'- gUGGACCAGccugcgGUUCGGUGAGCuGAUcgagauccgccgcaaGGACa -3'
miRNA:   3'- -ACUUGGUC------UAGGUCGCUCG-CUA---------------CCUG- -5'
7238 3' -54 NC_001900.1 + 43492 0.67 0.686004
Target:  5'- gUGAACCAcGAagUAGuCGGGCGuggGGACc -3'
miRNA:   3'- -ACUUGGU-CUagGUC-GCUCGCua-CCUG- -5'
7238 3' -54 NC_001900.1 + 47503 0.67 0.674823
Target:  5'- cGAGuCCAGGagcuugUCCAGgugcuuCGuGCGGUGGACc -3'
miRNA:   3'- aCUU-GGUCU------AGGUC------GCuCGCUACCUG- -5'
7238 3' -54 NC_001900.1 + 39889 0.67 0.674823
Target:  5'- cGGAUCAGcgaucuccuccuGUCCGGgGAGCGGgcugucaucGGACg -3'
miRNA:   3'- aCUUGGUC------------UAGGUCgCUCGCUa--------CCUG- -5'
7238 3' -54 NC_001900.1 + 44953 0.67 0.663598
Target:  5'- aUGAACCAacugCCAGCGgcAGCGGUucgGGAUc -3'
miRNA:   3'- -ACUUGGUcua-GGUCGC--UCGCUA---CCUG- -5'
7238 3' -54 NC_001900.1 + 7694 0.67 0.652344
Target:  5'- cGAagGCguGAUCCGGCGgcucaAGgGAUGGGg -3'
miRNA:   3'- aCU--UGguCUAGGUCGC-----UCgCUACCUg -5'
7238 3' -54 NC_001900.1 + 41769 0.68 0.629786
Target:  5'- ---cCCAGA-CCGGCG-GCGA-GGGCg -3'
miRNA:   3'- acuuGGUCUaGGUCGCuCGCUaCCUG- -5'
7238 3' -54 NC_001900.1 + 10404 0.68 0.618506
Target:  5'- aGGGCguGAUCCcgcGUGAGCGGgcucgcaaGGACa -3'
miRNA:   3'- aCUUGguCUAGGu--CGCUCGCUa-------CCUG- -5'
7238 3' -54 NC_001900.1 + 1140 0.68 0.595991
Target:  5'- gGAGCCGGggCaGGCG-GCGuggGUGGACu -3'
miRNA:   3'- aCUUGGUCuaGgUCGCuCGC---UACCUG- -5'
7238 3' -54 NC_001900.1 + 10906 0.69 0.573606
Target:  5'- --cACCGGAUCCAGC-AGUuccUGGACg -3'
miRNA:   3'- acuUGGUCUAGGUCGcUCGcu-ACCUG- -5'
7238 3' -54 NC_001900.1 + 28264 0.69 0.562484
Target:  5'- cGGAUCAGGUCCGGgaGGGCuccGUGGAg -3'
miRNA:   3'- aCUUGGUCUAGGUCg-CUCGc--UACCUg -5'
7238 3' -54 NC_001900.1 + 41085 0.71 0.435657
Target:  5'- cGGGCCAGG-CCGGUGAccucGCGGccgUGGACc -3'
miRNA:   3'- aCUUGGUCUaGGUCGCU----CGCU---ACCUG- -5'
7238 3' -54 NC_001900.1 + 39267 0.72 0.369694
Target:  5'- aGAGCCGGGUCCGGUucggaAGCGGgaccaccgGGACc -3'
miRNA:   3'- aCUUGGUCUAGGUCGc----UCGCUa-------CCUG- -5'
7238 3' -54 NC_001900.1 + 18317 0.72 0.369694
Target:  5'- cUGGACacgCAGAUCCuGGCGaAGCuGGUGGACc -3'
miRNA:   3'- -ACUUG---GUCUAGG-UCGC-UCG-CUACCUG- -5'
7238 3' -54 NC_001900.1 + 9878 0.74 0.306204
Target:  5'- cUGGGCgCGGGauugcaucgagaugcUCCAGCGAGCGAUcGACu -3'
miRNA:   3'- -ACUUG-GUCU---------------AGGUCGCUCGCUAcCUG- -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.