miRNA display CGI


Results 1 - 20 of 65 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
18350 3' -54 NC_004681.1 + 6783 0.66 0.84008
Target:  5'- --uCCGC-UCGGCCAGUG-CGaGCUGCa -3'
miRNA:   3'- uauGGCGcGGUUGGUUACuGC-CGAUG- -5'
18350 3' -54 NC_004681.1 + 14675 0.66 0.84008
Target:  5'- uUGCCgGUGCCGaaggcgacugcgGCCGugGUGGCGGUgGCg -3'
miRNA:   3'- uAUGG-CGCGGU------------UGGU--UACUGCCGaUG- -5'
18350 3' -54 NC_004681.1 + 49724 0.66 0.84008
Target:  5'- -cACCGCaagaaGCgCAGCCAG-GGCGGCa-- -3'
miRNA:   3'- uaUGGCG-----CG-GUUGGUUaCUGCCGaug -5'
18350 3' -54 NC_004681.1 + 20366 0.66 0.83118
Target:  5'- -cACCGUGCCAaucccgccgaaGCCGGaaGACGGCc-- -3'
miRNA:   3'- uaUGGCGCGGU-----------UGGUUa-CUGCCGaug -5'
18350 3' -54 NC_004681.1 + 26808 0.66 0.83118
Target:  5'- -cACCGCGgCGGCCAAcgcUGAcgucuuCGGCUuCg -3'
miRNA:   3'- uaUGGCGCgGUUGGUU---ACU------GCCGAuG- -5'
18350 3' -54 NC_004681.1 + 65143 0.66 0.83118
Target:  5'- cUACCGCGUCu-CCGGUGuccgcgcuuCGGuCUACu -3'
miRNA:   3'- uAUGGCGCGGuuGGUUACu--------GCC-GAUG- -5'
18350 3' -54 NC_004681.1 + 33641 0.66 0.83118
Target:  5'- -aGCgGCGCCAacagACCcuUGACGGUc-- -3'
miRNA:   3'- uaUGgCGCGGU----UGGuuACUGCCGaug -5'
18350 3' -54 NC_004681.1 + 19363 0.66 0.83118
Target:  5'- -gACCGgGUCGACCAcaccggccuggGcGACGGgUACa -3'
miRNA:   3'- uaUGGCgCGGUUGGU-----------UaCUGCCgAUG- -5'
18350 3' -54 NC_004681.1 + 32979 0.66 0.828469
Target:  5'- cGUACCGCGCgAAgggugucagcuaccCCGGUaGCGGcCUGCc -3'
miRNA:   3'- -UAUGGCGCGgUU--------------GGUUAcUGCC-GAUG- -5'
18350 3' -54 NC_004681.1 + 19612 0.66 0.82207
Target:  5'- -cGCUGCGgCGuggUCGAUGACGGCg-- -3'
miRNA:   3'- uaUGGCGCgGUu--GGUUACUGCCGaug -5'
18350 3' -54 NC_004681.1 + 61869 0.66 0.82207
Target:  5'- cGUAgaGCuCCuGGCCGAUGGCGGCcGCg -3'
miRNA:   3'- -UAUggCGcGG-UUGGUUACUGCCGaUG- -5'
18350 3' -54 NC_004681.1 + 30574 0.66 0.819297
Target:  5'- cUACCgGCGCaagcGCCAAggcgguucgcugccUGACGGCgUGCg -3'
miRNA:   3'- uAUGG-CGCGgu--UGGUU--------------ACUGCCG-AUG- -5'
18350 3' -54 NC_004681.1 + 25015 0.66 0.812759
Target:  5'- -cGCCGCGCaGAagGGUGGCaGCUGCc -3'
miRNA:   3'- uaUGGCGCGgUUggUUACUGcCGAUG- -5'
18350 3' -54 NC_004681.1 + 54431 0.66 0.812759
Target:  5'- -aGCUGCGUCGACCGA-GACauccuccgcaGCUACg -3'
miRNA:   3'- uaUGGCGCGGUUGGUUaCUGc---------CGAUG- -5'
18350 3' -54 NC_004681.1 + 14469 0.66 0.812759
Target:  5'- -cGCgCGCGCCGccuccGCCGAgcagGGCGcGCUGg -3'
miRNA:   3'- uaUG-GCGCGGU-----UGGUUa---CUGC-CGAUg -5'
18350 3' -54 NC_004681.1 + 32114 0.66 0.812759
Target:  5'- -gGCCGUGCCGACaccc-GCGGCg-- -3'
miRNA:   3'- uaUGGCGCGGUUGguuacUGCCGaug -5'
18350 3' -54 NC_004681.1 + 11777 0.66 0.807081
Target:  5'- -gGCCGCuucuacgagaucgguGCCAucACCGAgGACGGCg-- -3'
miRNA:   3'- uaUGGCG---------------CGGU--UGGUUaCUGCCGaug -5'
18350 3' -54 NC_004681.1 + 531 0.67 0.79747
Target:  5'- -gGCCGCGagucccUCAAcgacgggcacaagcuCCAGUGACGGCcGCa -3'
miRNA:   3'- uaUGGCGC------GGUU---------------GGUUACUGCCGaUG- -5'
18350 3' -54 NC_004681.1 + 40063 0.67 0.793576
Target:  5'- -gGCCGaCGCCAGCacccaGAUcGACaGGCUGg -3'
miRNA:   3'- uaUGGC-GCGGUUGg----UUA-CUG-CCGAUg -5'
18350 3' -54 NC_004681.1 + 33456 0.67 0.783726
Target:  5'- -cACCGUcguuGCgGGCCAGUGGCcguGGCUGa -3'
miRNA:   3'- uaUGGCG----CGgUUGGUUACUG---CCGAUg -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.