miRNA display CGI


Results 1 - 20 of 79 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
19712 3' -56.8 NC_004686.1 + 47325 1.14 0.000363
Target:  5'- uGGUUUCCGCAGCCGAACCGCGCCACCg -3'
miRNA:   3'- -CCAAAGGCGUCGGCUUGGCGCGGUGG- -5'
19712 3' -56.8 NC_004686.1 + 21470 0.86 0.040835
Target:  5'- cGGUUgCCGUAGCCGGcgaacuucuGCCGCuGCCACCg -3'
miRNA:   3'- -CCAAaGGCGUCGGCU---------UGGCG-CGGUGG- -5'
19712 3' -56.8 NC_004686.1 + 54968 0.8 0.100936
Target:  5'- ----aCCGCAgcGCCGccuacAACCGCGCCACCg -3'
miRNA:   3'- ccaaaGGCGU--CGGC-----UUGGCGCGGUGG- -5'
19712 3' -56.8 NC_004686.1 + 16515 0.79 0.112743
Target:  5'- uGGgcuucgCCGCGGCUGAuGCCGUGCCGCa -3'
miRNA:   3'- -CCaaa---GGCGUCGGCU-UGGCGCGGUGg -5'
19712 3' -56.8 NC_004686.1 + 41673 0.79 0.115572
Target:  5'- --gUUCCGUAGCgGAgguuggcGCCGCGCCACg -3'
miRNA:   3'- ccaAAGGCGUCGgCU-------UGGCGCGGUGg -5'
19712 3' -56.8 NC_004686.1 + 8290 0.78 0.132893
Target:  5'- uGGuUUUCCGUGGCUGGGCCuG-GCCACCg -3'
miRNA:   3'- -CC-AAAGGCGUCGGCUUGG-CgCGGUGG- -5'
19712 3' -56.8 NC_004686.1 + 26624 0.78 0.136559
Target:  5'- ----aCCGCAGcCCGGGCCGaCGCUGCCu -3'
miRNA:   3'- ccaaaGGCGUC-GGCUUGGC-GCGGUGG- -5'
19712 3' -56.8 NC_004686.1 + 39788 0.77 0.160566
Target:  5'- cGGUggggUGCAGUCGAACCGCGUugCGCCg -3'
miRNA:   3'- -CCAaag-GCGUCGGCUUGGCGCG--GUGG- -5'
19712 3' -56.8 NC_004686.1 + 53120 0.77 0.169379
Target:  5'- uGGUgcaUCCGCGGCUaGAcCCGCGUCACa -3'
miRNA:   3'- -CCAa--AGGCGUCGG-CUuGGCGCGGUGg -5'
19712 3' -56.8 NC_004686.1 + 34355 0.76 0.193328
Target:  5'- ---gUCCGgAGCCGccgcccgcgcCCGCGCCGCCg -3'
miRNA:   3'- ccaaAGGCgUCGGCuu--------GGCGCGGUGG- -5'
19712 3' -56.8 NC_004686.1 + 13401 0.75 0.228264
Target:  5'- aGGcgUCCGCcuGCCuggcuuccaacuccuGAGcCCGCGCCGCCa -3'
miRNA:   3'- -CCaaAGGCGu-CGG---------------CUU-GGCGCGGUGG- -5'
19712 3' -56.8 NC_004686.1 + 38652 0.74 0.243919
Target:  5'- cGUcgCCGCuGCgGAAucgguguauugcCCGCGCCACCu -3'
miRNA:   3'- cCAaaGGCGuCGgCUU------------GGCGCGGUGG- -5'
19712 3' -56.8 NC_004686.1 + 33998 0.74 0.250174
Target:  5'- uGGUUgggCUGCuGCCGccguuGCCGCcguuGCCGCCg -3'
miRNA:   3'- -CCAAa--GGCGuCGGCu----UGGCG----CGGUGG- -5'
19712 3' -56.8 NC_004686.1 + 44685 0.73 0.269734
Target:  5'- uGGUaggCGUAGUCGAucgcggggAUCGCGCCACCa -3'
miRNA:   3'- -CCAaagGCGUCGGCU--------UGGCGCGGUGG- -5'
19712 3' -56.8 NC_004686.1 + 139 0.73 0.276523
Target:  5'- cGGUcgCgGguGCCGAACCGCcaggcgacGCgGCCg -3'
miRNA:   3'- -CCAaaGgCguCGGCUUGGCG--------CGgUGG- -5'
19712 3' -56.8 NC_004686.1 + 52913 0.73 0.282749
Target:  5'- --cUUCCGCAgcGCCGGcgugaaaucauccACCGCGCCuucaGCCu -3'
miRNA:   3'- ccaAAGGCGU--CGGCU-------------UGGCGCGG----UGG- -5'
19712 3' -56.8 NC_004686.1 + 33822 0.73 0.283447
Target:  5'- cGGUgccggugCCGCcauuggAGCCGucACCGCuGCCGCCc -3'
miRNA:   3'- -CCAaa-----GGCG------UCGGCu-UGGCG-CGGUGG- -5'
19712 3' -56.8 NC_004686.1 + 19526 0.72 0.311761
Target:  5'- ----cCCGgAGCCGGuugauacgacgccGCCGaCGCCGCCg -3'
miRNA:   3'- ccaaaGGCgUCGGCU-------------UGGC-GCGGUGG- -5'
19712 3' -56.8 NC_004686.1 + 44049 0.72 0.312515
Target:  5'- ----cCCGCGGCCuGACCGCcGgCGCCg -3'
miRNA:   3'- ccaaaGGCGUCGGcUUGGCG-CgGUGG- -5'
19712 3' -56.8 NC_004686.1 + 22336 0.72 0.312515
Target:  5'- ----cUCGCGGCCGGccuUCGCGUCACCc -3'
miRNA:   3'- ccaaaGGCGUCGGCUu--GGCGCGGUGG- -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.