miRNA display CGI


Results 1 - 20 of 38 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
30504 3' -56.5 NC_006548.1 + 26073 0.66 0.538137
Target:  5'- cGGCGCUUUCCccCUaUCCAGgGgaugaugGGCu -3'
miRNA:   3'- uCCGCGAAAGGccGA-AGGUCgUa------CCG- -5'
30504 3' -56.5 NC_006548.1 + 27523 0.66 0.538137
Target:  5'- gGGGCuGCUguucgCCGGCaucgCCGGUuacGGCc -3'
miRNA:   3'- -UCCG-CGAaa---GGCCGaa--GGUCGua-CCG- -5'
30504 3' -56.5 NC_006548.1 + 29343 0.66 0.538137
Target:  5'- ---aGCUggUCGGCggCCAGCcgGGUa -3'
miRNA:   3'- uccgCGAaaGGCCGaaGGUCGuaCCG- -5'
30504 3' -56.5 NC_006548.1 + 3965 0.66 0.538137
Target:  5'- cAGG-GCUUcCCGGCagUCCuGCucgcucUGGCg -3'
miRNA:   3'- -UCCgCGAAaGGCCGa-AGGuCGu-----ACCG- -5'
30504 3' -56.5 NC_006548.1 + 11955 0.66 0.538137
Target:  5'- cGGCGCag-CCaGGCaccuacgaccUCCAGguUGGCc -3'
miRNA:   3'- uCCGCGaaaGG-CCGa---------AGGUCguACCG- -5'
30504 3' -56.5 NC_006548.1 + 4259 0.66 0.52719
Target:  5'- uGGCGUUguugaCGGCaUCCAgGCAUcgGGCc -3'
miRNA:   3'- uCCGCGAaag--GCCGaAGGU-CGUA--CCG- -5'
30504 3' -56.5 NC_006548.1 + 5635 0.66 0.52719
Target:  5'- -uGCGCaagCCGGC--CCGGCcUGGCc -3'
miRNA:   3'- ucCGCGaaaGGCCGaaGGUCGuACCG- -5'
30504 3' -56.5 NC_006548.1 + 18248 0.66 0.516327
Target:  5'- uAGGCGCUgacugagcaCUGGCauccCCAGCcauugGGCg -3'
miRNA:   3'- -UCCGCGAaa-------GGCCGaa--GGUCGua---CCG- -5'
30504 3' -56.5 NC_006548.1 + 32960 0.66 0.505555
Target:  5'- uGGCGCgc-CCGGUgcagCGGCGcUGGCc -3'
miRNA:   3'- uCCGCGaaaGGCCGaag-GUCGU-ACCG- -5'
30504 3' -56.5 NC_006548.1 + 24924 0.66 0.498072
Target:  5'- uGGCGCUcaucaacgacgaguaCGGCacUUCCAGCucacgGGCa -3'
miRNA:   3'- uCCGCGAaag------------GCCG--AAGGUCGua---CCG- -5'
30504 3' -56.5 NC_006548.1 + 4824 0.66 0.494881
Target:  5'- -cGUGCUUgaagCCGGC----GGCAUGGCu -3'
miRNA:   3'- ucCGCGAAa---GGCCGaaggUCGUACCG- -5'
30504 3' -56.5 NC_006548.1 + 31074 0.66 0.494881
Target:  5'- uGGCGC--UCCGGCaaCC--CGUGGCu -3'
miRNA:   3'- uCCGCGaaAGGCCGaaGGucGUACCG- -5'
30504 3' -56.5 NC_006548.1 + 22752 0.66 0.494881
Target:  5'- uGGCaGCga--CGaGCUgcucgaucgCCAGCGUGGCg -3'
miRNA:   3'- uCCG-CGaaagGC-CGAa--------GGUCGUACCG- -5'
30504 3' -56.5 NC_006548.1 + 2876 0.66 0.48431
Target:  5'- cAGGCGCUcgUCgaaGGCgauguugUCGGCcAUGGCc -3'
miRNA:   3'- -UCCGCGAa-AGg--CCGaa-----GGUCG-UACCG- -5'
30504 3' -56.5 NC_006548.1 + 12824 0.66 0.48431
Target:  5'- -cGCGCgag-CGGCgcgguaagUCCGGUGUGGCu -3'
miRNA:   3'- ucCGCGaaagGCCGa-------AGGUCGUACCG- -5'
30504 3' -56.5 NC_006548.1 + 26345 0.67 0.463502
Target:  5'- cGGCGCgcuggaugUCGGUcagcguUUCCGGCcgGGUc -3'
miRNA:   3'- uCCGCGaaa-----GGCCG------AAGGUCGuaCCG- -5'
30504 3' -56.5 NC_006548.1 + 28826 0.67 0.443172
Target:  5'- cGGCGCgagcaCgGGCUUCCAG---GGCu -3'
miRNA:   3'- uCCGCGaaa--GgCCGAAGGUCguaCCG- -5'
30504 3' -56.5 NC_006548.1 + 25713 0.67 0.433197
Target:  5'- cAGGUGCUggagCGGCaacUCCAGUAccUGGUg -3'
miRNA:   3'- -UCCGCGAaag-GCCGa--AGGUCGU--ACCG- -5'
30504 3' -56.5 NC_006548.1 + 21537 0.67 0.423354
Target:  5'- uGGaGCGCUccUUCaGGCUaCCGGCAgaacGGCc -3'
miRNA:   3'- -UC-CGCGA--AAGgCCGAaGGUCGUa---CCG- -5'
30504 3' -56.5 NC_006548.1 + 23868 0.67 0.423354
Target:  5'- cGGGuCGCgccaCCGGCauggCCGGCG-GGCu -3'
miRNA:   3'- -UCC-GCGaaa-GGCCGaa--GGUCGUaCCG- -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.