miRNA display CGI


Results 1 - 20 of 60 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
14630 3' -59.6 NC_003521.1 + 110994 0.66 0.837339
Target:  5'- gCCACGGgCCCCagcagcAGGCGG-CCCAGc- -3'
miRNA:   3'- aGGUGCC-GGGGc-----UUCGCUaGGGUCuu -5'
14630 3' -59.6 NC_003521.1 + 187238 0.66 0.837339
Target:  5'- gCCAagUGaGCUUCGAGGCGGcCCCGGGAg -3'
miRNA:   3'- aGGU--GC-CGGGGCUUCGCUaGGGUCUU- -5'
14630 3' -59.6 NC_003521.1 + 179044 0.66 0.821318
Target:  5'- aUCCAC-GCCggagCCGGcGGCGGUCCCGGu- -3'
miRNA:   3'- -AGGUGcCGG----GGCU-UCGCUAGGGUCuu -5'
14630 3' -59.6 NC_003521.1 + 196933 0.66 0.836554
Target:  5'- gUCCAcCGGCagcaCCGGuagcgugGGCGAcggCCCGGGAg -3'
miRNA:   3'- -AGGU-GCCGg---GGCU-------UCGCUa--GGGUCUU- -5'
14630 3' -59.6 NC_003521.1 + 3057 0.66 0.837339
Target:  5'- aCCGC--CCCCGAAuucucCGAUCCCGGGAa -3'
miRNA:   3'- aGGUGccGGGGCUUc----GCUAGGGUCUU- -5'
14630 3' -59.6 NC_003521.1 + 199998 0.66 0.860081
Target:  5'- gUCCAUGgcgcgggccccGCCCCGAGGCGAauagcugaccgCgCCGGGAg -3'
miRNA:   3'- -AGGUGC-----------CGGGGCUUCGCUa----------G-GGUCUU- -5'
14630 3' -59.6 NC_003521.1 + 200337 0.66 0.845097
Target:  5'- gCUGCGGCgCCGuGGCGcgCCgCGGAc -3'
miRNA:   3'- aGGUGCCGgGGCuUCGCuaGG-GUCUu -5'
14630 3' -59.6 NC_003521.1 + 178120 0.66 0.845097
Target:  5'- aUCugGGCCUCGGgcagGGCGgGUCCC-GAAg -3'
miRNA:   3'- aGGugCCGGGGCU----UCGC-UAGGGuCUU- -5'
14630 3' -59.6 NC_003521.1 + 92042 0.66 0.851178
Target:  5'- gCCGCGGCuCCuCGgcGCGAccgccgagggcaCCCAGAu -3'
miRNA:   3'- aGGUGCCG-GG-GCuuCGCUa-----------GGGUCUu -5'
14630 3' -59.6 NC_003521.1 + 125120 0.66 0.860081
Target:  5'- aCCACGGCCgCCGucagcuuGGCcaguuugCCCAGGu -3'
miRNA:   3'- aGGUGCCGG-GGCu------UCGcua----GGGUCUu -5'
14630 3' -59.6 NC_003521.1 + 46243 0.66 0.859349
Target:  5'- gUCgCACGGCCUCGAcgucgcccucgguGGCGGUagCgCAGAGg -3'
miRNA:   3'- -AG-GUGCCGGGGCU-------------UCGCUA--GgGUCUU- -5'
14630 3' -59.6 NC_003521.1 + 180653 0.66 0.845097
Target:  5'- gCCGCGGCUcgcuaCCGggGCGAcgacauccaCCAGGu -3'
miRNA:   3'- aGGUGCCGG-----GGCuuCGCUag-------GGUCUu -5'
14630 3' -59.6 NC_003521.1 + 30091 0.66 0.860081
Target:  5'- gCCACGGCCUa----CGAUUCCGGGAc -3'
miRNA:   3'- aGGUGCCGGGgcuucGCUAGGGUCUU- -5'
14630 3' -59.6 NC_003521.1 + 146358 0.66 0.85268
Target:  5'- aCCGC-GCCguacaCGggGCGGUUCCGGGu -3'
miRNA:   3'- aGGUGcCGGg----GCuuCGCUAGGGUCUu -5'
14630 3' -59.6 NC_003521.1 + 116724 0.66 0.821318
Target:  5'- uUCCACGGCgguCCCGGAGuCGGcgCCCu--- -3'
miRNA:   3'- -AGGUGCCG---GGGCUUC-GCUa-GGGucuu -5'
14630 3' -59.6 NC_003521.1 + 164794 0.66 0.821318
Target:  5'- -gCACgGGUCgUCGggGaCGAUCCCGGAGc -3'
miRNA:   3'- agGUG-CCGG-GGCuuC-GCUAGGGUCUU- -5'
14630 3' -59.6 NC_003521.1 + 194878 0.66 0.821318
Target:  5'- cUCCACGGCCCucuuCGAccGCGAgaucgCCUGGGc -3'
miRNA:   3'- -AGGUGCCGGG----GCUu-CGCUa----GGGUCUu -5'
14630 3' -59.6 NC_003521.1 + 121206 0.66 0.837339
Target:  5'- cUCCACGGUCUCGcgcaGGGCGcgCagcuCCAGGAa -3'
miRNA:   3'- -AGGUGCCGGGGC----UUCGCuaG----GGUCUU- -5'
14630 3' -59.6 NC_003521.1 + 216865 0.66 0.837339
Target:  5'- uUCCA-GGCCCgUGGAGCGGgacaUCCAGGc -3'
miRNA:   3'- -AGGUgCCGGG-GCUUCGCUa---GGGUCUu -5'
14630 3' -59.6 NC_003521.1 + 219199 0.66 0.837339
Target:  5'- cCCA-GGCCCaUGAuGGCGGUCgCCAGGc -3'
miRNA:   3'- aGGUgCCGGG-GCU-UCGCUAG-GGUCUu -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.