miRNA display CGI


Results 1 - 20 of 52 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
8517 3' -45 NC_002169.1 + 32431 0.66 0.999995
Target:  5'- -cGGCGACGCCGUgu-ACcGAGCUgucgCCg -3'
miRNA:   3'- ucUUGCUGUGGCGauuUGuUUUGA----GG- -5'
8517 3' -45 NC_002169.1 + 81536 0.66 0.999995
Target:  5'- cGAGCuGGCGCCGCUGuugcuggcGCGAGAaauuuacgCCa -3'
miRNA:   3'- uCUUG-CUGUGGCGAUu-------UGUUUUga------GG- -5'
8517 3' -45 NC_002169.1 + 48185 0.66 0.999995
Target:  5'- gAGAuaGCGGCAUCGC-GGGCA-GAC-CCg -3'
miRNA:   3'- -UCU--UGCUGUGGCGaUUUGUuUUGaGG- -5'
8517 3' -45 NC_002169.1 + 63008 0.66 0.999993
Target:  5'- -cGACGACGaCGa-AGACGAAGCUCUa -3'
miRNA:   3'- ucUUGCUGUgGCgaUUUGUUUUGAGG- -5'
8517 3' -45 NC_002169.1 + 51929 0.66 0.999993
Target:  5'- uGGACGGCA-CGCUGAuuGAGACgcgaaguggCCa -3'
miRNA:   3'- uCUUGCUGUgGCGAUUugUUUUGa--------GG- -5'
8517 3' -45 NC_002169.1 + 22144 0.66 0.999993
Target:  5'- -uGugGACGCCGUc--AUAGAACUuCCa -3'
miRNA:   3'- ucUugCUGUGGCGauuUGUUUUGA-GG- -5'
8517 3' -45 NC_002169.1 + 97263 0.66 0.999993
Target:  5'- aAGAAagccguucuCGACGCCGCUGAcuauugaaaACAAAAUa-- -3'
miRNA:   3'- -UCUU---------GCUGUGGCGAUU---------UGUUUUGagg -5'
8517 3' -45 NC_002169.1 + 24307 0.66 0.999993
Target:  5'- uAGGuuCGACAauuaCGCUGAGCAuu-CUCa -3'
miRNA:   3'- -UCUu-GCUGUg---GCGAUUUGUuuuGAGg -5'
8517 3' -45 NC_002169.1 + 33813 0.66 0.999988
Target:  5'- --uACGACGCCGCuUgucgcuguagugguuGAGCGAGuagagcuGCUCCu -3'
miRNA:   3'- ucuUGCUGUGGCG-A---------------UUUGUUU-------UGAGG- -5'
8517 3' -45 NC_002169.1 + 49690 0.66 0.999988
Target:  5'- -cGGCGACGCCGUUGAucugaaACAcguuuauguugagcaGAcGCUCCa -3'
miRNA:   3'- ucUUGCUGUGGCGAUU------UGU---------------UU-UGAGG- -5'
8517 3' -45 NC_002169.1 + 39532 0.67 0.999981
Target:  5'- -cGACGGCGgUGCcgaucggcaauaUGAGCGAcGCUCCg -3'
miRNA:   3'- ucUUGCUGUgGCG------------AUUUGUUuUGAGG- -5'
8517 3' -45 NC_002169.1 + 58056 0.67 0.999981
Target:  5'- -cGACGACGCCGUc-GACAAuuUUCUc -3'
miRNA:   3'- ucUUGCUGUGGCGauUUGUUuuGAGG- -5'
8517 3' -45 NC_002169.1 + 24254 0.67 0.999981
Target:  5'- aAGAACGcGCugCGCU--ACAAAGC-Ca -3'
miRNA:   3'- -UCUUGC-UGugGCGAuuUGUUUUGaGg -5'
8517 3' -45 NC_002169.1 + 80405 0.67 0.999981
Target:  5'- cGAACGuuuggGCACCGCUAc-CAAAgucgauuacAUUCCa -3'
miRNA:   3'- uCUUGC-----UGUGGCGAUuuGUUU---------UGAGG- -5'
8517 3' -45 NC_002169.1 + 30320 0.67 0.999981
Target:  5'- -cGACGACGCCGCcgcucACGuuGCcgCCg -3'
miRNA:   3'- ucUUGCUGUGGCGauu--UGUuuUGa-GG- -5'
8517 3' -45 NC_002169.1 + 69221 0.67 0.999974
Target:  5'- uAGAugGAU-CCGgUGAACGAGAgguuUUCCu -3'
miRNA:   3'- -UCUugCUGuGGCgAUUUGUUUU----GAGG- -5'
8517 3' -45 NC_002169.1 + 114536 0.67 0.999974
Target:  5'- gAGGGCGACGCUGUcGAuggccaggcACAAugUUCCc -3'
miRNA:   3'- -UCUUGCUGUGGCGaUU---------UGUUuuGAGG- -5'
8517 3' -45 NC_002169.1 + 55351 0.67 0.999974
Target:  5'- -cGGCGGCAUcgCGCUAuuCGAAugUCUu -3'
miRNA:   3'- ucUUGCUGUG--GCGAUuuGUUUugAGG- -5'
8517 3' -45 NC_002169.1 + 94388 0.67 0.999974
Target:  5'- --uACGACgGCUGCUAcGCc-AACUCCg -3'
miRNA:   3'- ucuUGCUG-UGGCGAUuUGuuUUGAGG- -5'
8517 3' -45 NC_002169.1 + 118487 0.67 0.999964
Target:  5'- uAGAugaGACGCUGCUGAuCGGGAgguaugccCUCCu -3'
miRNA:   3'- -UCUug-CUGUGGCGAUUuGUUUU--------GAGG- -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.