miRNA display CGI


Results 1 - 20 of 29 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
12487 3' -58 NC_003324.1 + 51405 1.11 0.000531
Target:  5'- uCCGGUGAAGAUCAGCCGCGGCGACCGg -3'
miRNA:   3'- -GGCCACUUCUAGUCGGCGCCGCUGGC- -5'
12487 3' -58 NC_003324.1 + 11230 0.77 0.134368
Target:  5'- gCCGGaaaUGGAGAUCAGCCGgacaCGGCuACCGu -3'
miRNA:   3'- -GGCC---ACUUCUAGUCGGC----GCCGcUGGC- -5'
12487 3' -58 NC_003324.1 + 13163 0.75 0.194456
Target:  5'- gUCGGcGgcGGUCGGCgGCGGCGguACCGg -3'
miRNA:   3'- -GGCCaCuuCUAGUCGgCGCCGC--UGGC- -5'
12487 3' -58 NC_003324.1 + 15239 0.72 0.288489
Target:  5'- aCCGGcgaUGGAGAUCGGCggcgagccuuuucaCGUGGCG-CCGu -3'
miRNA:   3'- -GGCC---ACUUCUAGUCG--------------GCGCCGCuGGC- -5'
12487 3' -58 NC_003324.1 + 51133 0.72 0.304936
Target:  5'- gCCGGacuaUGAAGGUgAGCCGUcuucaggcaGGUGACCu -3'
miRNA:   3'- -GGCC----ACUUCUAgUCGGCG---------CCGCUGGc -5'
12487 3' -58 NC_003324.1 + 17153 0.71 0.359363
Target:  5'- gCGGUGAAGGUgAauGCCgguGUGGCGAUCa -3'
miRNA:   3'- gGCCACUUCUAgU--CGG---CGCCGCUGGc -5'
12487 3' -58 NC_003324.1 + 36065 0.7 0.383817
Target:  5'- aCGGUGAuuaucgaAGAgccCGGCUGUGGCGAgUGa -3'
miRNA:   3'- gGCCACU-------UCUa--GUCGGCGCCGCUgGC- -5'
12487 3' -58 NC_003324.1 + 54497 0.7 0.38468
Target:  5'- -gGGUGAGGggCAuCCGCGaagccugcagcGCGACCGg -3'
miRNA:   3'- ggCCACUUCuaGUcGGCGC-----------CGCUGGC- -5'
12487 3' -58 NC_003324.1 + 2520 0.7 0.402202
Target:  5'- uUGGUGggGAacaAGCCGCcGGCG-UCGg -3'
miRNA:   3'- gGCCACuuCUag-UCGGCG-CCGCuGGC- -5'
12487 3' -58 NC_003324.1 + 24564 0.7 0.411151
Target:  5'- gCCGG--AAGAUCGucaccGCUGCGGgCGACCa -3'
miRNA:   3'- -GGCCacUUCUAGU-----CGGCGCC-GCUGGc -5'
12487 3' -58 NC_003324.1 + 39160 0.7 0.414765
Target:  5'- gUCGGUGAcgaucggcaccuucuGGcgCAGCCacgGCGGCaACCGa -3'
miRNA:   3'- -GGCCACU---------------UCuaGUCGG---CGCCGcUGGC- -5'
12487 3' -58 NC_003324.1 + 21181 0.69 0.448145
Target:  5'- cCCGacGUGGAagccGAcgCAgcacgcGCCGCGGCGGCCGa -3'
miRNA:   3'- -GGC--CACUU----CUa-GU------CGGCGCCGCUGGC- -5'
12487 3' -58 NC_003324.1 + 49102 0.69 0.448145
Target:  5'- -aGGUGAgaAGcaUGGCCGCgagGGCGGCCGa -3'
miRNA:   3'- ggCCACU--UCuaGUCGGCG---CCGCUGGC- -5'
12487 3' -58 NC_003324.1 + 4254 0.69 0.457679
Target:  5'- -aGGUGAAGGUCGaucagaugcGCCaCGGCGuuuccGCCGg -3'
miRNA:   3'- ggCCACUUCUAGU---------CGGcGCCGC-----UGGC- -5'
12487 3' -58 NC_003324.1 + 5632 0.68 0.49685
Target:  5'- gCGGcGAAGGUU-GCgGCGGCaACCGg -3'
miRNA:   3'- gGCCaCUUCUAGuCGgCGCCGcUGGC- -5'
12487 3' -58 NC_003324.1 + 8194 0.68 0.49685
Target:  5'- gCgGGUGAGuuUCAGCacaggCGCaacGGCGACCGu -3'
miRNA:   3'- -GgCCACUUcuAGUCG-----GCG---CCGCUGGC- -5'
12487 3' -58 NC_003324.1 + 51279 0.68 0.516995
Target:  5'- aCGGUuuugcaAGGAUCAGCCGCcGGCaGGCg- -3'
miRNA:   3'- gGCCAc-----UUCUAGUCGGCG-CCG-CUGgc -5'
12487 3' -58 NC_003324.1 + 11817 0.67 0.52719
Target:  5'- -aGGUGAAGAUUGGUgGCGuuGACUa -3'
miRNA:   3'- ggCCACUUCUAGUCGgCGCcgCUGGc -5'
12487 3' -58 NC_003324.1 + 30168 0.67 0.547797
Target:  5'- aCCGaaggcGUcGAGGA--AGCCGCaGCGGCCGg -3'
miRNA:   3'- -GGC-----CA-CUUCUagUCGGCGcCGCUGGC- -5'
12487 3' -58 NC_003324.1 + 56146 0.67 0.564463
Target:  5'- gCGGguucgccagccugGAAGccgaCGGCCGUGGCGACUu -3'
miRNA:   3'- gGCCa------------CUUCua--GUCGGCGCCGCUGGc -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.