miRNA display CGI


Results 1 - 17 of 17 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
30408 5' -55 NC_006548.1 + 13105 0.66 0.574633
Target:  5'- -uCGUUGGU-GUGcUGCAGcUGCAGGUUg -3'
miRNA:   3'- uuGCAACCGuCGC-ACGUU-ACGUCCGG- -5'
30408 5' -55 NC_006548.1 + 8009 0.66 0.574633
Target:  5'- gAGCGc--GCAGCGcGCcggauGAUGCAGGCg -3'
miRNA:   3'- -UUGCaacCGUCGCaCG-----UUACGUCCGg -5'
30408 5' -55 NC_006548.1 + 31815 0.66 0.551915
Target:  5'- cAACGUUGuGCcGUGUGCAauuuAUGCGuucGGCg -3'
miRNA:   3'- -UUGCAAC-CGuCGCACGU----UACGU---CCGg -5'
30408 5' -55 NC_006548.1 + 2799 0.66 0.551915
Target:  5'- -cCGUaccGGCAGCGUGCu-UGCccuGcGCCg -3'
miRNA:   3'- uuGCAa--CCGUCGCACGuuACGu--C-CGG- -5'
30408 5' -55 NC_006548.1 + 8610 0.67 0.507381
Target:  5'- -gUGUUGGguGaCGUuuccGUggUGCcAGGCCa -3'
miRNA:   3'- uuGCAACCguC-GCA----CGuuACG-UCCGG- -5'
30408 5' -55 NC_006548.1 + 25177 0.67 0.496481
Target:  5'- cAGCGUUcGUucGGgGUGCAGgaucUGCAGGUCa -3'
miRNA:   3'- -UUGCAAcCG--UCgCACGUU----ACGUCCGG- -5'
30408 5' -55 NC_006548.1 + 24033 0.67 0.496481
Target:  5'- --aGUUGGCAGUc-GCGAgcgccUGCcAGGCCg -3'
miRNA:   3'- uugCAACCGUCGcaCGUU-----ACG-UCCGG- -5'
30408 5' -55 NC_006548.1 + 19891 0.67 0.485687
Target:  5'- -----aGGCGGCGUG-AGUGCAGGg- -3'
miRNA:   3'- uugcaaCCGUCGCACgUUACGUCCgg -5'
30408 5' -55 NC_006548.1 + 27871 0.68 0.475007
Target:  5'- uGGCGggugagGuGCAGC--GCAGUGguGGCCg -3'
miRNA:   3'- -UUGCaa----C-CGUCGcaCGUUACguCCGG- -5'
30408 5' -55 NC_006548.1 + 28076 0.68 0.464445
Target:  5'- -----aGGCGGCuG-GCGGccUGCAGGCCg -3'
miRNA:   3'- uugcaaCCGUCG-CaCGUU--ACGUCCGG- -5'
30408 5' -55 NC_006548.1 + 23181 0.68 0.43352
Target:  5'- gGACGUUcggccagcuccGGCAGCGUG--AUGUAcacGGCCa -3'
miRNA:   3'- -UUGCAA-----------CCGUCGCACguUACGU---CCGG- -5'
30408 5' -55 NC_006548.1 + 600 0.68 0.43352
Target:  5'- uGGCGgcGGCAGCGUcCAAUccucaAGGCCc -3'
miRNA:   3'- -UUGCaaCCGUCGCAcGUUAcg---UCCGG- -5'
30408 5' -55 NC_006548.1 + 27111 0.69 0.398044
Target:  5'- -uUGUUGuuGCAGCGagGCcgccaccauggcccuGAUGCGGGCCg -3'
miRNA:   3'- uuGCAAC--CGUCGCa-CG---------------UUACGUCCGG- -5'
30408 5' -55 NC_006548.1 + 36439 0.7 0.357298
Target:  5'- cGCGgcUGaGCAGCGcGUAGuucaucUGCAGGCCg -3'
miRNA:   3'- uUGCa-AC-CGUCGCaCGUU------ACGUCCGG- -5'
30408 5' -55 NC_006548.1 + 16732 0.72 0.254658
Target:  5'- -uUGUUGGgGGUGaGCAGgcGCAGGCCg -3'
miRNA:   3'- uuGCAACCgUCGCaCGUUa-CGUCCGG- -5'
30408 5' -55 NC_006548.1 + 34238 0.73 0.22214
Target:  5'- uGCGUgacGGCaacAGCGUGacaGGUGCAGGCa -3'
miRNA:   3'- uUGCAa--CCG---UCGCACg--UUACGUCCGg -5'
30408 5' -55 NC_006548.1 + 2753 1.1 0.00039
Target:  5'- gAACGUUGGCAGCGUGCAAUGCAGGCCa -3'
miRNA:   3'- -UUGCAACCGUCGCACGUUACGUCCGG- -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.