miRNA display CGI


Results 1 - 18 of 18 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
23132 3' -60 NC_005178.1 + 16448 0.66 0.349996
Target:  5'- aGGCGUUCAGG-CggCGCacacggacgaccuUGGCGCCAUc -3'
miRNA:   3'- -UUGCAGGUCCaGaaGCG-------------GCCGCGGUA- -5'
23132 3' -60 NC_005178.1 + 10025 0.66 0.334139
Target:  5'- gGACuUCCAGGUCggCGUCGGCcuucuucugcGCCu- -3'
miRNA:   3'- -UUGcAGGUCCAGaaGCGGCCG----------CGGua -5'
23132 3' -60 NC_005178.1 + 28145 0.66 0.334139
Target:  5'- cGGCGcCCAGGggCUgacgGUCGGCGCCu- -3'
miRNA:   3'- -UUGCaGGUCCa-GAag--CGGCCGCGGua -5'
23132 3' -60 NC_005178.1 + 10094 0.66 0.318024
Target:  5'- --gGUCCAGG-CUgaugCGCUGGgcCGCCGUg -3'
miRNA:   3'- uugCAGGUCCaGAa---GCGGCC--GCGGUA- -5'
23132 3' -60 NC_005178.1 + 4911 0.67 0.3025
Target:  5'- aGACGaCCAGGUCgacggcacCGCuCGGCGaCCGg -3'
miRNA:   3'- -UUGCaGGUCCAGaa------GCG-GCCGC-GGUa -5'
23132 3' -60 NC_005178.1 + 23098 0.67 0.287566
Target:  5'- cACGUCCAuGGUg-UCGUCGGCcgaGCCGa -3'
miRNA:   3'- uUGCAGGU-CCAgaAGCGGCCG---CGGUa -5'
23132 3' -60 NC_005178.1 + 461 0.68 0.25945
Target:  5'- gAACG-CCAGGUCgcCGaCCGGgaCGCCAg -3'
miRNA:   3'- -UUGCaGGUCCAGaaGC-GGCC--GCGGUa -5'
23132 3' -60 NC_005178.1 + 22707 0.68 0.252781
Target:  5'- -uCG-CCGGGUCgcUGCCGaGUGCCAUa -3'
miRNA:   3'- uuGCaGGUCCAGaaGCGGC-CGCGGUA- -5'
23132 3' -60 NC_005178.1 + 19674 0.68 0.252122
Target:  5'- cGCGUgCCAGGgCUUgGCCagaagauGGCGCCGg -3'
miRNA:   3'- uUGCA-GGUCCaGAAgCGG-------CCGCGGUa -5'
23132 3' -60 NC_005178.1 + 31306 0.68 0.246254
Target:  5'- cAGCG-CCGGG-CUaugCGCCuGGCGCCGc -3'
miRNA:   3'- -UUGCaGGUCCaGAa--GCGG-CCGCGGUa -5'
23132 3' -60 NC_005178.1 + 13227 0.68 0.239867
Target:  5'- gAACGgCUGGGUCgggGCCGGCGUCGg -3'
miRNA:   3'- -UUGCaGGUCCAGaagCGGCCGCGGUa -5'
23132 3' -60 NC_005178.1 + 5737 0.68 0.227508
Target:  5'- cGACGU-CAGGUCUUCGCUuucguccgGGUGCUg- -3'
miRNA:   3'- -UUGCAgGUCCAGAAGCGG--------CCGCGGua -5'
23132 3' -60 NC_005178.1 + 25404 0.69 0.204407
Target:  5'- gGACGUCgcgguaggcgCGGGUCUgugCGUCGGCGCa-- -3'
miRNA:   3'- -UUGCAG----------GUCCAGAa--GCGGCCGCGgua -5'
23132 3' -60 NC_005178.1 + 14285 0.69 0.193111
Target:  5'- cAAgGUCCAGGUCUUCGgcuCCGGCaagcggaugcgcgGCCu- -3'
miRNA:   3'- -UUgCAGGUCCAGAAGC---GGCCG-------------CGGua -5'
23132 3' -60 NC_005178.1 + 29823 0.7 0.178414
Target:  5'- aGGCGcuucUUCAGGUCUUCgGCCGGCuCCGa -3'
miRNA:   3'- -UUGC----AGGUCCAGAAG-CGGCCGcGGUa -5'
23132 3' -60 NC_005178.1 + 28942 0.71 0.155398
Target:  5'- cGCGUCCGgcacGGcCaUCGCCGuGCGCCAg -3'
miRNA:   3'- uUGCAGGU----CCaGaAGCGGC-CGCGGUa -5'
23132 3' -60 NC_005178.1 + 11492 0.72 0.12769
Target:  5'- -uCGUCCAGGcCgUCGCUGGCGUUAc -3'
miRNA:   3'- uuGCAGGUCCaGaAGCGGCCGCGGUa -5'
23132 3' -60 NC_005178.1 + 20958 1.03 0.000517
Target:  5'- cAACGUCCAGGUCUUCGCCGGCGCCAUc -3'
miRNA:   3'- -UUGCAGGUCCAGAAGCGGCCGCGGUA- -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.