miRNA display CGI


Results 1 - 20 of 64 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
14378 3' -55.8 NC_003521.1 + 53057 0.66 0.963098
Target:  5'- -gCCCAGcuccucgcgcAGGggCGCGAAGuuGCGCAg -3'
miRNA:   3'- caGGGUC----------UCCagGUGCUUCuuCGCGU- -5'
14378 3' -55.8 NC_003521.1 + 110561 0.66 0.963098
Target:  5'- uGUUCCGGGuGaUCCACGuacGGGAGCGUg -3'
miRNA:   3'- -CAGGGUCUcC-AGGUGCu--UCUUCGCGu -5'
14378 3' -55.8 NC_003521.1 + 36432 0.66 0.959681
Target:  5'- --gUCGGAGGgCCGCGGAGAcgaguuGCGCu -3'
miRNA:   3'- cagGGUCUCCaGGUGCUUCUu-----CGCGu -5'
14378 3' -55.8 NC_003521.1 + 116724 0.66 0.959681
Target:  5'- uUCCaCGGcGGUCC-CGGAGucGGCGCc -3'
miRNA:   3'- cAGG-GUCuCCAGGuGCUUCu-UCGCGu -5'
14378 3' -55.8 NC_003521.1 + 66382 0.66 0.956053
Target:  5'- -gCCCAGAGGaUCAUGAaaacucuggacgAGGAGCGgGa -3'
miRNA:   3'- caGGGUCUCCaGGUGCU------------UCUUCGCgU- -5'
14378 3' -55.8 NC_003521.1 + 91422 0.66 0.953773
Target:  5'- cGUCCguGAcGGccacggCCACGAAgcccacgggggugacGAGGCGCAg -3'
miRNA:   3'- -CAGGguCU-CCa-----GGUGCUU---------------CUUCGCGU- -5'
14378 3' -55.8 NC_003521.1 + 151726 0.66 0.952209
Target:  5'- cGUCCUGGcGGGUgaUGCGAaagaAGAAGCGCGu -3'
miRNA:   3'- -CAGGGUC-UCCAg-GUGCU----UCUUCGCGU- -5'
14378 3' -55.8 NC_003521.1 + 89742 0.66 0.952209
Target:  5'- -aCCCgAGGGGUCgGCGGuccAGAAacccGCGCGc -3'
miRNA:   3'- caGGG-UCUCCAGgUGCU---UCUU----CGCGU- -5'
14378 3' -55.8 NC_003521.1 + 203515 0.66 0.952209
Target:  5'- -aCCCAGAGGag-ACGugcagacGGAGGCGCAg -3'
miRNA:   3'- caGGGUCUCCaggUGCu------UCUUCGCGU- -5'
14378 3' -55.8 NC_003521.1 + 78890 0.66 0.949798
Target:  5'- cGUCa-GGGGGUCCACGcgggccucguagacgGGGAAGcCGCGc -3'
miRNA:   3'- -CAGggUCUCCAGGUGC---------------UUCUUC-GCGU- -5'
14378 3' -55.8 NC_003521.1 + 13909 0.66 0.948146
Target:  5'- -gCgCGGAGGgggCCGCGGAGGccGCGCu -3'
miRNA:   3'- caGgGUCUCCa--GGUGCUUCUu-CGCGu -5'
14378 3' -55.8 NC_003521.1 + 178443 0.67 0.94386
Target:  5'- cGUCUCcGuGGUUCcguUGAAGggGCGCGa -3'
miRNA:   3'- -CAGGGuCuCCAGGu--GCUUCuuCGCGU- -5'
14378 3' -55.8 NC_003521.1 + 142313 0.67 0.94386
Target:  5'- aGUCCCAGAuGUCCACGAcGAccacccAGCc-- -3'
miRNA:   3'- -CAGGGUCUcCAGGUGCUuCU------UCGcgu -5'
14378 3' -55.8 NC_003521.1 + 40978 0.67 0.94386
Target:  5'- -cCCCGGGGGgaCGCGGAGGAGgGgGg -3'
miRNA:   3'- caGGGUCUCCagGUGCUUCUUCgCgU- -5'
14378 3' -55.8 NC_003521.1 + 40145 0.67 0.94386
Target:  5'- uUUUCAGAGGcaaaCgGCG-AGAAGCGCAg -3'
miRNA:   3'- cAGGGUCUCCa---GgUGCuUCUUCGCGU- -5'
14378 3' -55.8 NC_003521.1 + 240373 0.67 0.94386
Target:  5'- uUUUCAGAGGcaaaCgGCG-AGAAGCGCAg -3'
miRNA:   3'- cAGGGUCUCCa---GgUGCuUCUUCGCGU- -5'
14378 3' -55.8 NC_003521.1 + 657 0.67 0.94386
Target:  5'- -cCCCGGGGGgaCGCGGAGGAGgGgGg -3'
miRNA:   3'- caGGGUCUCCagGUGCUUCUUCgCgU- -5'
14378 3' -55.8 NC_003521.1 + 178662 0.67 0.93935
Target:  5'- aGUCCCAGcAGGUgcgCCGCGuGGAugaacaucGCGCu -3'
miRNA:   3'- -CAGGGUC-UCCA---GGUGCuUCUu-------CGCGu -5'
14378 3' -55.8 NC_003521.1 + 6550 0.67 0.93935
Target:  5'- -cCCCAGggcAGGgCgACGAGGuGGCGCAc -3'
miRNA:   3'- caGGGUC---UCCaGgUGCUUCuUCGCGU- -5'
14378 3' -55.8 NC_003521.1 + 97158 0.67 0.935096
Target:  5'- uUCCaguggucgugguggaAGAGGUCCGUGuGGAAGCGCc -3'
miRNA:   3'- cAGGg--------------UCUCCAGGUGCuUCUUCGCGu -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.