miRNA display CGI


Results 1 - 15 of 15 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 3' -62.2 NC_006548.1 + 5853 0.66 0.264983
Target:  5'- -aCG-GCcuugGCCUUGCGCgcaGCCUGCAc -3'
miRNA:   3'- ucGCaCGaa--CGGGACGCGg--CGGACGU- -5'
30408 3' -62.2 NC_006548.1 + 21096 0.66 0.262286
Target:  5'- uGGCGUccagccugccGCUguucuuccugauaGCUCUGCGCuCGCgCUGCAa -3'
miRNA:   3'- -UCGCA----------CGAa------------CGGGACGCG-GCG-GACGU- -5'
30408 3' -62.2 NC_006548.1 + 496 0.66 0.258282
Target:  5'- ----cGCUUGCUauCUGCgGCCGCCUGgAg -3'
miRNA:   3'- ucgcaCGAACGG--GACG-CGGCGGACgU- -5'
30408 3' -62.2 NC_006548.1 + 2241 0.66 0.251721
Target:  5'- aGGCGUaGCcggucaGCUCcgGCGCCGCCgcGCAg -3'
miRNA:   3'- -UCGCA-CGaa----CGGGa-CGCGGCGGa-CGU- -5'
30408 3' -62.2 NC_006548.1 + 28682 0.66 0.245298
Target:  5'- cAGCG-GCuUUGUCUU-CGCCGCCUGa- -3'
miRNA:   3'- -UCGCaCG-AACGGGAcGCGGCGGACgu -5'
30408 3' -62.2 NC_006548.1 + 1118 0.66 0.239012
Target:  5'- gAGCGaGCcugGCCguCUGCGCgGCCaGCAa -3'
miRNA:   3'- -UCGCaCGaa-CGG--GACGCGgCGGaCGU- -5'
30408 3' -62.2 NC_006548.1 + 20248 0.67 0.226842
Target:  5'- aAGUaGUGCUUGCCCggaaccGgGuuGCCUGg- -3'
miRNA:   3'- -UCG-CACGAACGGGa-----CgCggCGGACgu -5'
30408 3' -62.2 NC_006548.1 + 2186 0.67 0.209577
Target:  5'- uGCGUGCUcaggaaGUCCUugcGCGCCuUCUGCAg -3'
miRNA:   3'- uCGCACGAa-----CGGGA---CGCGGcGGACGU- -5'
30408 3' -62.2 NC_006548.1 + 27277 0.68 0.164452
Target:  5'- cAGCGcG-UUGCUCgGuCGCCGCCUGCu -3'
miRNA:   3'- -UCGCaCgAACGGGaC-GCGGCGGACGu -5'
30408 3' -62.2 NC_006548.1 + 7123 0.7 0.135599
Target:  5'- aGGCG-GCUcUGCCCcgaguccuUGCGCCGCUUacGCGg -3'
miRNA:   3'- -UCGCaCGA-ACGGG--------ACGCGGCGGA--CGU- -5'
30408 3' -62.2 NC_006548.1 + 12257 0.7 0.135599
Target:  5'- uGGCGUGCUgaUGCCCgcucGC-CCGUCgGCGc -3'
miRNA:   3'- -UCGCACGA--ACGGGa---CGcGGCGGaCGU- -5'
30408 3' -62.2 NC_006548.1 + 32869 0.72 0.096757
Target:  5'- -uCGUGCUggggGCCUUGCGCUG-CUGCGc -3'
miRNA:   3'- ucGCACGAa---CGGGACGCGGCgGACGU- -5'
30408 3' -62.2 NC_006548.1 + 20328 0.74 0.066455
Target:  5'- cGCGgugacgGCUcUGaccgagaUCCUGCGCCGCCUGCGu -3'
miRNA:   3'- uCGCa-----CGA-AC-------GGGACGCGGCGGACGU- -5'
30408 3' -62.2 NC_006548.1 + 33327 0.74 0.05766
Target:  5'- cAGCcUGCUguacGCCCUGCGUgGCCgGCAg -3'
miRNA:   3'- -UCGcACGAa---CGGGACGCGgCGGaCGU- -5'
30408 3' -62.2 NC_006548.1 + 2790 1.08 0.000121
Target:  5'- cAGCGUGCUUGCCCUGCGCCGCCUGCAg -3'
miRNA:   3'- -UCGCACGAACGGGACGCGGCGGACGU- -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.