miRNA display CGI


Results 1 - 20 of 69 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
18447 3' -59.1 NC_004681.1 + 36196 1.08 0.000638
Target:  5'- cGCAGCCGCUCAACCUCGGCCACCAGUu -3'
miRNA:   3'- -CGUCGGCGAGUUGGAGCCGGUGGUCA- -5'
18447 3' -59.1 NC_004681.1 + 65783 0.75 0.167099
Target:  5'- gGCGGaguucguCCGuCUCGGCCUCGGCCGCCc-- -3'
miRNA:   3'- -CGUC-------GGC-GAGUUGGAGCCGGUGGuca -5'
18447 3' -59.1 NC_004681.1 + 55889 0.73 0.233871
Target:  5'- aGCAGCCGCUCucGACCUauggcgaGGUCGuuguuCCAGUa -3'
miRNA:   3'- -CGUCGGCGAG--UUGGAg------CCGGU-----GGUCA- -5'
18447 3' -59.1 NC_004681.1 + 8985 0.73 0.233871
Target:  5'- --cGCUGUUCGgcgccACCUCGGCCACCGu- -3'
miRNA:   3'- cguCGGCGAGU-----UGGAGCCGGUGGUca -5'
18447 3' -59.1 NC_004681.1 + 9925 0.73 0.236226
Target:  5'- uGCGGCCGCUgcggaCAACCUUGGUCucgaccucguccucgACCAGc -3'
miRNA:   3'- -CGUCGGCGA-----GUUGGAGCCGG---------------UGGUCa -5'
18447 3' -59.1 NC_004681.1 + 46450 0.72 0.252026
Target:  5'- cGCGGCCuGCUCcgguACCUCGGCCuggaGGUc -3'
miRNA:   3'- -CGUCGG-CGAGu---UGGAGCCGGugg-UCA- -5'
18447 3' -59.1 NC_004681.1 + 27915 0.72 0.284841
Target:  5'- aGCGGCaCGCggGGCCUCGGCgGCaCGGc -3'
miRNA:   3'- -CGUCG-GCGagUUGGAGCCGgUG-GUCa -5'
18447 3' -59.1 NC_004681.1 + 57681 0.71 0.313455
Target:  5'- cGCAG-CGCUCGAcgcaauCCUCGGCCAacccgaCAGg -3'
miRNA:   3'- -CGUCgGCGAGUU------GGAGCCGGUg-----GUCa -5'
18447 3' -59.1 NC_004681.1 + 3342 0.71 0.320186
Target:  5'- aGCgAGCCaggaagaGCgCAGCCUCGGCCAggucCCGGUu -3'
miRNA:   3'- -CG-UCGG-------CGaGUUGGAGCCGGU----GGUCA- -5'
18447 3' -59.1 NC_004681.1 + 50407 0.71 0.32094
Target:  5'- gGguGCCcaugaGUUCAGCgUCGGCCGCgGGg -3'
miRNA:   3'- -CguCGG-----CGAGUUGgAGCCGGUGgUCa -5'
18447 3' -59.1 NC_004681.1 + 56325 0.71 0.327791
Target:  5'- uGCAGCuCGCUCGggucgacGCCgguccaGGCCACCGa- -3'
miRNA:   3'- -CGUCG-GCGAGU-------UGGag----CCGGUGGUca -5'
18447 3' -59.1 NC_004681.1 + 29798 0.71 0.328559
Target:  5'- cGCGGCCGgUCGACCUa---CGCCAGg -3'
miRNA:   3'- -CGUCGGCgAGUUGGAgccgGUGGUCa -5'
18447 3' -59.1 NC_004681.1 + 7263 0.7 0.344193
Target:  5'- cGCGGCCGUcC-ACCUCGG-CGCCgAGUg -3'
miRNA:   3'- -CGUCGGCGaGuUGGAGCCgGUGG-UCA- -5'
18447 3' -59.1 NC_004681.1 + 10178 0.7 0.344193
Target:  5'- gGUAGCC-CUCAACCUUGGagauuucgaCUACCGGa -3'
miRNA:   3'- -CGUCGGcGAGUUGGAGCC---------GGUGGUCa -5'
18447 3' -59.1 NC_004681.1 + 62529 0.7 0.360356
Target:  5'- gGCAGCCGCcuccgacaccgUCuACCUCGGUguCAuCCAGg -3'
miRNA:   3'- -CGUCGGCG-----------AGuUGGAGCCG--GU-GGUCa -5'
18447 3' -59.1 NC_004681.1 + 17907 0.69 0.385576
Target:  5'- cGCGGCCGCcgcgUUGAUgUCGGCCugCGu- -3'
miRNA:   3'- -CGUCGGCG----AGUUGgAGCCGGugGUca -5'
18447 3' -59.1 NC_004681.1 + 69005 0.69 0.385576
Target:  5'- gGCGGCCGUgacgauggUCAgcgccucgaugGCgUCGGCCgcgGCCAGUa -3'
miRNA:   3'- -CGUCGGCG--------AGU-----------UGgAGCCGG---UGGUCA- -5'
18447 3' -59.1 NC_004681.1 + 46059 0.69 0.394238
Target:  5'- gGCAGUCGCUCAuuuguuUCUUGGUugUACCGGa -3'
miRNA:   3'- -CGUCGGCGAGUu-----GGAGCCG--GUGGUCa -5'
18447 3' -59.1 NC_004681.1 + 16153 0.69 0.403024
Target:  5'- gGCGGCCaucccgucGCUCAucgcgcuguCCUCGGCCAUCu-- -3'
miRNA:   3'- -CGUCGG--------CGAGUu--------GGAGCCGGUGGuca -5'
18447 3' -59.1 NC_004681.1 + 16001 0.69 0.406574
Target:  5'- cGCGGCCaCggCGAUCUucacggugacccacgCGGCCGCCAGg -3'
miRNA:   3'- -CGUCGGcGa-GUUGGA---------------GCCGGUGGUCa -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.