miRNA display CGI


Results 1 - 20 of 50 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
11544 5' -65.2 NC_003085.1 + 15039 1.05 0.000136
Target:  5'- cCGGCCCAAGCCGCAGCCCAGGGCCAAa -3'
miRNA:   3'- -GCCGGGUUCGGCGUCGGGUCCCGGUU- -5'
11544 5' -65.2 NC_003085.1 + 15271 0.67 0.168125
Target:  5'- gCGGCCgAGcucacccGCCGCgcccgcgucaugcuGGCCCGGGGCg-- -3'
miRNA:   3'- -GCCGGgUU-------CGGCG--------------UCGGGUCCCGguu -5'
11544 5' -65.2 NC_003085.1 + 30065 0.67 0.171696
Target:  5'- aGGCCCAGGCCGgcauggaggacuugcUGGCUCAGaaggacgccGGCCGc -3'
miRNA:   3'- gCCGGGUUCGGC---------------GUCGGGUC---------CCGGUu -5'
11544 5' -65.2 NC_003085.1 + 8965 0.67 0.179042
Target:  5'- gGGCCaagGGCCGCGGCCCGcggacuucaccGGCCc- -3'
miRNA:   3'- gCCGGgu-UCGGCGUCGGGUc----------CCGGuu -5'
11544 5' -65.2 NC_003085.1 + 19347 0.66 0.193569
Target:  5'- aGGCCC-GGCaGguGCCUAaGGCCAu -3'
miRNA:   3'- gCCGGGuUCGgCguCGGGUcCCGGUu -5'
11544 5' -65.2 NC_003085.1 + 9078 0.66 0.198637
Target:  5'- uCGGCCCcAGCaaguGCGGCuCCAuGGCCc- -3'
miRNA:   3'- -GCCGGGuUCGg---CGUCG-GGUcCCGGuu -5'
11544 5' -65.2 NC_003085.1 + 43494 0.66 0.202252
Target:  5'- aCGGCCCcaccGCCuccaGCAGCCCGgcguggacgggaacGGcGCCGAa -3'
miRNA:   3'- -GCCGGGuu--CGG----CGUCGGGU--------------CC-CGGUU- -5'
11544 5' -65.2 NC_003085.1 + 37231 0.66 0.209118
Target:  5'- gCGGCCCAGccGCCGC-GCUCAaGGCa-- -3'
miRNA:   3'- -GCCGGGUU--CGGCGuCGGGUcCCGguu -5'
11544 5' -65.2 NC_003085.1 + 29251 0.66 0.214536
Target:  5'- aGGCCUA--CCGCAacGCCCAGuccgaauucGGCCAGc -3'
miRNA:   3'- gCCGGGUucGGCGU--CGGGUC---------CCGGUU- -5'
11544 5' -65.2 NC_003085.1 + 11525 0.67 0.16549
Target:  5'- gCGGUuaCC-GGCCGCgcguucgucgAGCgCCGGGGCCAu -3'
miRNA:   3'- -GCCG--GGuUCGGCG----------UCG-GGUCCCGGUu -5'
11544 5' -65.2 NC_003085.1 + 19994 0.68 0.148856
Target:  5'- aCGGCCCu-GCCGCcGUCgucguGGGGCCGc -3'
miRNA:   3'- -GCCGGGuuCGGCGuCGGg----UCCCGGUu -5'
11544 5' -65.2 NC_003085.1 + 782 0.68 0.148856
Target:  5'- gCGGCCUgcuGCUGUGGCCCcaGGCCAc -3'
miRNA:   3'- -GCCGGGuu-CGGCGUCGGGucCCGGUu -5'
11544 5' -65.2 NC_003085.1 + 26385 0.75 0.044225
Target:  5'- -uGCUCGGGCCGCugagcGCCCAGGGCUg- -3'
miRNA:   3'- gcCGGGUUCGGCGu----CGGGUCCCGGuu -5'
11544 5' -65.2 NC_003085.1 + 35890 0.75 0.045491
Target:  5'- ---aCCGGGCCGCGGaguCCCAGGGCCAu -3'
miRNA:   3'- gccgGGUUCGGCGUC---GGGUCCCGGUu -5'
11544 5' -65.2 NC_003085.1 + 15182 0.73 0.056971
Target:  5'- aCGGCCCGgcugAGCCGguGCgCCAGcGCCGc -3'
miRNA:   3'- -GCCGGGU----UCGGCguCG-GGUCcCGGUu -5'
11544 5' -65.2 NC_003085.1 + 30004 0.73 0.064436
Target:  5'- gCGGCCCugggcGGCCuuggcgacgucguccGCGGCuuCCAGGGCCAGc -3'
miRNA:   3'- -GCCGGGu----UCGG---------------CGUCG--GGUCCCGGUU- -5'
11544 5' -65.2 NC_003085.1 + 32841 0.69 0.113742
Target:  5'- gGGCCCGagaGGCCGCGcGCCgCGGGaCCGc -3'
miRNA:   3'- gCCGGGU---UCGGCGU-CGG-GUCCcGGUu -5'
11544 5' -65.2 NC_003085.1 + 41120 0.69 0.115925
Target:  5'- aGGCCCAGGCCG-AGCgCGGcaccccguacugcuGGCCGGa -3'
miRNA:   3'- gCCGGGUUCGGCgUCGgGUC--------------CCGGUU- -5'
11544 5' -65.2 NC_003085.1 + 3209 0.69 0.123041
Target:  5'- uGGCCCGAuGCCGCaaGGCgaugccggcgcuaCCuGGGCCGg -3'
miRNA:   3'- gCCGGGUU-CGGCG--UCG-------------GGuCCCGGUu -5'
11544 5' -65.2 NC_003085.1 + 11438 0.69 0.126749
Target:  5'- aCGGCCCGugcaaggaguggGGCUGCAcCgCCGGGGuCCAGa -3'
miRNA:   3'- -GCCGGGU------------UCGGCGUcG-GGUCCC-GGUU- -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.