miRNA display CGI


Results 1 - 20 of 30 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
23100 3' -57.7 NC_005178.1 + 10498 1.1 0.000321
Target:  5'- gGGCUUGCGUGACGGGCAAACCGCCCGu -3'
miRNA:   3'- -CCGAACGCACUGCCCGUUUGGCGGGC- -5'
23100 3' -57.7 NC_005178.1 + 1687 0.66 0.488734
Target:  5'- uGGCUggucgaugUGCGUGGCGgccgcguGGCuuACgGCCgCGa -3'
miRNA:   3'- -CCGA--------ACGCACUGC-------CCGuuUGgCGG-GC- -5'
23100 3' -57.7 NC_005178.1 + 22486 0.66 0.469301
Target:  5'- cGGCg-GCGa---GGGUGAGCCGUCCGc -3'
miRNA:   3'- -CCGaaCGCacugCCCGUUUGGCGGGC- -5'
23100 3' -57.7 NC_005178.1 + 20071 0.67 0.449281
Target:  5'- aGGCUccgGCcUGugGgGGCGugucgaauacACCGCCCGc -3'
miRNA:   3'- -CCGAa--CGcACugC-CCGUu---------UGGCGGGC- -5'
23100 3' -57.7 NC_005178.1 + 21982 0.67 0.435551
Target:  5'- aGCUgguaGUG-GACGGGCGuaucgaguccgacACCGCCUGg -3'
miRNA:   3'- cCGAa---CGCaCUGCCCGUu------------UGGCGGGC- -5'
23100 3' -57.7 NC_005178.1 + 15955 0.68 0.392211
Target:  5'- cGCUUGCGcGauaaagcaucGCGGGCGAgguacuccaGCCGUUCGg -3'
miRNA:   3'- cCGAACGCaC----------UGCCCGUU---------UGGCGGGC- -5'
23100 3' -57.7 NC_005178.1 + 8769 0.68 0.392211
Target:  5'- uGGCcaGCGUG-CGGGCGgcggucuuugcAACCGCUg- -3'
miRNA:   3'- -CCGaaCGCACuGCCCGU-----------UUGGCGGgc -5'
23100 3' -57.7 NC_005178.1 + 28528 0.68 0.374264
Target:  5'- gGGCg-GCGcuacaUGACuGGGCGggGGCCGUCCGc -3'
miRNA:   3'- -CCGaaCGC-----ACUG-CCCGU--UUGGCGGGC- -5'
23100 3' -57.7 NC_005178.1 + 1511 0.68 0.374264
Target:  5'- aGGCUUGCGaccuUGACcguuacgaGGUc-GCCGCCCGc -3'
miRNA:   3'- -CCGAACGC----ACUGc-------CCGuuUGGCGGGC- -5'
23100 3' -57.7 NC_005178.1 + 9880 0.7 0.293142
Target:  5'- cGCUcGCGUcGCGGGC-GugCGCUCGg -3'
miRNA:   3'- cCGAaCGCAcUGCCCGuUugGCGGGC- -5'
23100 3' -57.7 NC_005178.1 + 6043 0.7 0.290933
Target:  5'- cGGCUgaaGcCGUGAUgaagacggugccgaGGGguGGCCGCCCc -3'
miRNA:   3'- -CCGAa--C-GCACUG--------------CCCguUUGGCGGGc -5'
23100 3' -57.7 NC_005178.1 + 24138 0.74 0.142612
Target:  5'- gGGCUc-CGUGACGGGCGAgguacuccccGCCGaCCUGg -3'
miRNA:   3'- -CCGAacGCACUGCCCGUU----------UGGC-GGGC- -5'
23100 3' -57.7 NC_005178.1 + 3032 0.72 0.219918
Target:  5'- aGGCcgaGCGUGGCGcccuggugccgaaGGUccGCCGCCCGg -3'
miRNA:   3'- -CCGaa-CGCACUGC-------------CCGuuUGGCGGGC- -5'
23100 3' -57.7 NC_005178.1 + 12098 0.71 0.243054
Target:  5'- uGGUc-GCGUGGCGGGCcuggccgaugggcgcGCCGCCUGc -3'
miRNA:   3'- -CCGaaCGCACUGCCCGuu-------------UGGCGGGC- -5'
23100 3' -57.7 NC_005178.1 + 10327 0.71 0.244965
Target:  5'- gGGCcggGCGcgGAgGGGCGAAgCGCgCCGg -3'
miRNA:   3'- -CCGaa-CGCa-CUgCCCGUUUgGCG-GGC- -5'
23100 3' -57.7 NC_005178.1 + 34823 0.71 0.244965
Target:  5'- cGGCgacaaccgGCGUGGCgccgccaccaccGGGCuggauuCCGCCCGa -3'
miRNA:   3'- -CCGaa------CGCACUG------------CCCGuuu---GGCGGGC- -5'
23100 3' -57.7 NC_005178.1 + 3546 0.7 0.281512
Target:  5'- gGGCUacgucaaccacaugaUGCGcGACGaGGCGgucggccuuaugGGCCGCCUGg -3'
miRNA:   3'- -CCGA---------------ACGCaCUGC-CCGU------------UUGGCGGGC- -5'
23100 3' -57.7 NC_005178.1 + 32408 0.7 0.28583
Target:  5'- cGCUUGCG-GAUGGGCA-GCCGgUgCGg -3'
miRNA:   3'- cCGAACGCaCUGCCCGUuUGGC-GgGC- -5'
23100 3' -57.7 NC_005178.1 + 27294 0.66 0.500156
Target:  5'- ----aGCGUGGCcGGCAGGCCgaugcGUCCGg -3'
miRNA:   3'- ccgaaCGCACUGcCCGUUUGG-----CGGGC- -5'
23100 3' -57.7 NC_005178.1 + 2894 0.7 0.293142
Target:  5'- aGGCUacggGCGcGGCGGuCGAACaCGCCCu -3'
miRNA:   3'- -CCGAa---CGCaCUGCCcGUUUG-GCGGGc -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.