miRNA display CGI


Results 1 - 20 of 57 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
11476 3' -57.1 NC_003085.1 + 40604 0.66 0.642119
Target:  5'- aCCG-GGCGAgggGCCuGUGcUGACgGCCGc -3'
miRNA:   3'- -GGCuCCGCUa--UGG-CGCcAUUGgCGGU- -5'
11476 3' -57.1 NC_003085.1 + 40557 0.66 0.642119
Target:  5'- gUCGAGGCGcaagGCCuuggugGCGGUGcGCaUGCCAg -3'
miRNA:   3'- -GGCUCCGCua--UGG------CGCCAU-UG-GCGGU- -5'
11476 3' -57.1 NC_003085.1 + 12901 0.66 0.631289
Target:  5'- cCCGugcaauGGCGAccCCGCcacGGCCGCCAg -3'
miRNA:   3'- -GGCu-----CCGCUauGGCGccaUUGGCGGU- -5'
11476 3' -57.1 NC_003085.1 + 10175 0.66 0.628041
Target:  5'- aCCG-GGCGGacccggcugcaaUGcgcgaccugcucacCCGCGGgagGCCGCCAg -3'
miRNA:   3'- -GGCuCCGCU------------AU--------------GGCGCCau-UGGCGGU- -5'
11476 3' -57.1 NC_003085.1 + 13430 0.66 0.620461
Target:  5'- aCgGGGGC-AUACgGCGuGcccaUGGCCGCCAu -3'
miRNA:   3'- -GgCUCCGcUAUGgCGC-C----AUUGGCGGU- -5'
11476 3' -57.1 NC_003085.1 + 3096 0.66 0.620461
Target:  5'- gCCGcAGGCcg-ACgGCGGaugaacuuGCCGCCAu -3'
miRNA:   3'- -GGC-UCCGcuaUGgCGCCau------UGGCGGU- -5'
11476 3' -57.1 NC_003085.1 + 30650 0.66 0.620461
Target:  5'- aCCGuGGCGAgucGCUGCGGcagGGCgcucugCGCCu -3'
miRNA:   3'- -GGCuCCGCUa--UGGCGCCa--UUG------GCGGu -5'
11476 3' -57.1 NC_003085.1 + 275 0.66 0.620461
Target:  5'- gCUGAgcacGGUGAgAUUGaGGUGACCGCCGa -3'
miRNA:   3'- -GGCU----CCGCUaUGGCgCCAUUGGCGGU- -5'
11476 3' -57.1 NC_003085.1 + 983 0.66 0.609642
Target:  5'- aCGAGGCGcuUGCCGag--AGCaCGCCAa -3'
miRNA:   3'- gGCUCCGCu-AUGGCgccaUUG-GCGGU- -5'
11476 3' -57.1 NC_003085.1 + 3218 0.66 0.598842
Target:  5'- gCCGcaAGGCGAUGCCGgCGcu-ACCuggGCCGg -3'
miRNA:   3'- -GGC--UCCGCUAUGGC-GCcauUGG---CGGU- -5'
11476 3' -57.1 NC_003085.1 + 18798 0.66 0.598842
Target:  5'- gCGAGGCGcagagcgcccUGCCGCaGcGACuCGCCAc -3'
miRNA:   3'- gGCUCCGCu---------AUGGCGcCaUUG-GCGGU- -5'
11476 3' -57.1 NC_003085.1 + 18295 0.66 0.588069
Target:  5'- aCCG-GGCGGUGCaCGCcccGGcgcUGGCCGuCCGa -3'
miRNA:   3'- -GGCuCCGCUAUG-GCG---CC---AUUGGC-GGU- -5'
11476 3' -57.1 NC_003085.1 + 6931 0.66 0.588069
Target:  5'- gCCGAGGCGAaGCgggaggccaCGCaGGUGGCgugcgaaGCCAu -3'
miRNA:   3'- -GGCUCCGCUaUG---------GCG-CCAUUGg------CGGU- -5'
11476 3' -57.1 NC_003085.1 + 1011 0.67 0.577333
Target:  5'- gCUGAGGUGGccuaUGCuCGCGGccucGCCGuCCAu -3'
miRNA:   3'- -GGCUCCGCU----AUG-GCGCCau--UGGC-GGU- -5'
11476 3' -57.1 NC_003085.1 + 41467 0.67 0.56664
Target:  5'- gCUGGGGCGcgggugaaGUACCGCGccagcGCUGCCu -3'
miRNA:   3'- -GGCUCCGC--------UAUGGCGCcau--UGGCGGu -5'
11476 3' -57.1 NC_003085.1 + 1288 0.67 0.555999
Target:  5'- -gGAGGgGAUGCCGgaguucuccCGcGUGGCCGCgAa -3'
miRNA:   3'- ggCUCCgCUAUGGC---------GC-CAUUGGCGgU- -5'
11476 3' -57.1 NC_003085.1 + 38059 0.67 0.555998
Target:  5'- aCCGcGGCGGUgcgucaGCCgGCGGUAGCgCuCCAc -3'
miRNA:   3'- -GGCuCCGCUA------UGG-CGCCAUUG-GcGGU- -5'
11476 3' -57.1 NC_003085.1 + 9089 0.67 0.549641
Target:  5'- gCCaGAGGCGucagcGCCGCGGgcAgcagcggcuugcccaCCGCCc -3'
miRNA:   3'- -GG-CUCCGCua---UGGCGCCauU---------------GGCGGu -5'
11476 3' -57.1 NC_003085.1 + 16191 0.67 0.545416
Target:  5'- uUCGAGGUGAgccgugACCGCGcuccUCGCCGu -3'
miRNA:   3'- -GGCUCCGCUa-----UGGCGCcauuGGCGGU- -5'
11476 3' -57.1 NC_003085.1 + 12073 0.67 0.545416
Target:  5'- cCCGGGGCGAUucUCGUcuacggggcgGGUGACgCGCgCAa -3'
miRNA:   3'- -GGCUCCGCUAu-GGCG----------CCAUUG-GCG-GU- -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.