miRNA display CGI


Results 1 - 20 of 25 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
19397 5' -54.5 NC_004685.1 + 22963 0.66 0.816374
Target:  5'- gGCCGAugUcgGCagccGGGCGCCgacacCUCGg -3'
miRNA:   3'- aCGGCUugA--CGaa--CUCGCGGaa---GAGC- -5'
19397 5' -54.5 NC_004685.1 + 27105 0.66 0.806993
Target:  5'- cG-CGAACcucgGCUUGcGCcucaGCCUUCUCGg -3'
miRNA:   3'- aCgGCUUGa---CGAACuCG----CGGAAGAGC- -5'
19397 5' -54.5 NC_004685.1 + 63230 0.66 0.806993
Target:  5'- gGCCGAGCUGauccugGAgGUGCUggcagCUCGg -3'
miRNA:   3'- aCGGCUUGACgaa---CU-CGCGGaa---GAGC- -5'
19397 5' -54.5 NC_004685.1 + 42050 0.66 0.787694
Target:  5'- gGCCGuc---CUUGAGUGCCUcguggauuuccUCUCGg -3'
miRNA:   3'- aCGGCuugacGAACUCGCGGA-----------AGAGC- -5'
19397 5' -54.5 NC_004685.1 + 34979 0.66 0.787694
Target:  5'- aUGCCGAgcaGCUGCgcggUGcccacccacGCGCCgucCUCGa -3'
miRNA:   3'- -ACGGCU---UGACGa---ACu--------CGCGGaa-GAGC- -5'
19397 5' -54.5 NC_004685.1 + 39109 0.66 0.787694
Target:  5'- cGCCGggUucuacggaaaUGC-UGGGuCGCCUggCUCGu -3'
miRNA:   3'- aCGGCuuG----------ACGaACUC-GCGGAa-GAGC- -5'
19397 5' -54.5 NC_004685.1 + 54700 0.66 0.777797
Target:  5'- gGCCGGggaGCUGCUc-GGUGCCgagguccgCUCGg -3'
miRNA:   3'- aCGGCU---UGACGAacUCGCGGaa------GAGC- -5'
19397 5' -54.5 NC_004685.1 + 29929 0.66 0.767751
Target:  5'- aUGCCGAACaGCUUGAGgaaGUCggaugcCUCa -3'
miRNA:   3'- -ACGGCUUGaCGAACUCg--CGGaa----GAGc -5'
19397 5' -54.5 NC_004685.1 + 41560 0.66 0.767751
Target:  5'- cGUCGAcgGCUGCggUGGGCGCCcccaCGg -3'
miRNA:   3'- aCGGCU--UGACGa-ACUCGCGGaagaGC- -5'
19397 5' -54.5 NC_004685.1 + 4263 0.67 0.757565
Target:  5'- gGCCGAGCUGgc-GGGCGUCgucggcaagCUCGc -3'
miRNA:   3'- aCGGCUUGACgaaCUCGCGGaa-------GAGC- -5'
19397 5' -54.5 NC_004685.1 + 46003 0.67 0.757565
Target:  5'- uUGCCGGGCaGCgccGAGCGCagcgaaucCUCGa -3'
miRNA:   3'- -ACGGCUUGaCGaa-CUCGCGgaa-----GAGC- -5'
19397 5' -54.5 NC_004685.1 + 8775 0.67 0.747252
Target:  5'- cGCCGucgugGCUUGAGgGCUUgaagCUCa -3'
miRNA:   3'- aCGGCuuga-CGAACUCgCGGAa---GAGc -5'
19397 5' -54.5 NC_004685.1 + 11620 0.67 0.747252
Target:  5'- cGCCGAc--GCaUGAGCGCCgUCUgCGc -3'
miRNA:   3'- aCGGCUugaCGaACUCGCGGaAGA-GC- -5'
19397 5' -54.5 NC_004685.1 + 62177 0.67 0.726289
Target:  5'- cGCCGggUacgGCUUGcggcccGCGCCUUC-Ca -3'
miRNA:   3'- aCGGCuuGa--CGAACu-----CGCGGAAGaGc -5'
19397 5' -54.5 NC_004685.1 + 37830 0.67 0.715662
Target:  5'- aGCCGGGaUGCccaGcAGCGCCUUCaUCGu -3'
miRNA:   3'- aCGGCUUgACGaa-C-UCGCGGAAG-AGC- -5'
19397 5' -54.5 NC_004685.1 + 21950 0.68 0.704953
Target:  5'- gGCuUGGGCUcggGCUUGGGCucgggcuucGCCUUCUUGg -3'
miRNA:   3'- aCG-GCUUGA---CGAACUCG---------CGGAAGAGC- -5'
19397 5' -54.5 NC_004685.1 + 26798 0.68 0.683333
Target:  5'- --aCGAGCUGCUUGAGCuCCUggaaUUCa -3'
miRNA:   3'- acgGCUUGACGAACUCGcGGAa---GAGc -5'
19397 5' -54.5 NC_004685.1 + 62678 0.68 0.683333
Target:  5'- aUGUCGAcuACUGCUUcAGCGaCUUcCUCGg -3'
miRNA:   3'- -ACGGCU--UGACGAAcUCGCgGAA-GAGC- -5'
19397 5' -54.5 NC_004685.1 + 11382 0.68 0.661519
Target:  5'- cGCCGGagGCUgGCgcgaaucGAGCGCCgggUUUCGg -3'
miRNA:   3'- aCGGCU--UGA-CGaa-----CUCGCGGa--AGAGC- -5'
19397 5' -54.5 NC_004685.1 + 7876 0.69 0.639596
Target:  5'- gGUCGAGgUGCUgauGCGCCacaaUCUCGa -3'
miRNA:   3'- aCGGCUUgACGAacuCGCGGa---AGAGC- -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.