miRNA display CGI


Results 1 - 20 of 23 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
18278 3' -57.7 NC_004681.1 + 28346 0.66 0.683251
Target:  5'- -gUCCucgucACCC-CGGCGCCGAUGc -3'
miRNA:   3'- agAGGuacucUGGGaGCCGCGGCUAU- -5'
18278 3' -57.7 NC_004681.1 + 31356 0.66 0.672678
Target:  5'- gUCUCCGacGuuGCCguagccaaacaCUCGGCGCCGGUc -3'
miRNA:   3'- -AGAGGUa-CucUGG-----------GAGCCGCGGCUAu -5'
18278 3' -57.7 NC_004681.1 + 41048 0.66 0.672678
Target:  5'- --cCCAUGcgacGGCCCucuUCGGCGCCGc-- -3'
miRNA:   3'- agaGGUACu---CUGGG---AGCCGCGGCuau -5'
18278 3' -57.7 NC_004681.1 + 3069 0.66 0.662069
Target:  5'- -gUCCugcgcaagAUGGGAgUCCUCGGCGCCa--- -3'
miRNA:   3'- agAGG--------UACUCU-GGGAGCCGCGGcuau -5'
18278 3' -57.7 NC_004681.1 + 61786 0.66 0.651435
Target:  5'- gUUUCCAUcuugGAGA-CCUCGGCGgCGGc- -3'
miRNA:   3'- -AGAGGUA----CUCUgGGAGCCGCgGCUau -5'
18278 3' -57.7 NC_004681.1 + 49890 0.66 0.651435
Target:  5'- aUCcagCCGUGGcaGCCCUUGGUGCCGu-- -3'
miRNA:   3'- -AGa--GGUACUc-UGGGAGCCGCGGCuau -5'
18278 3' -57.7 NC_004681.1 + 16750 0.66 0.640783
Target:  5'- --aCCAgUGAGACCCUCgagGGUGuCCGGg- -3'
miRNA:   3'- agaGGU-ACUCUGGGAG---CCGC-GGCUau -5'
18278 3' -57.7 NC_004681.1 + 32113 0.66 0.640783
Target:  5'- --gCCGUGccgacACCCgCGGCGCCGAUc -3'
miRNA:   3'- agaGGUACuc---UGGGaGCCGCGGCUAu -5'
18278 3' -57.7 NC_004681.1 + 55219 0.67 0.619467
Target:  5'- cCUCCGaauucGAGACCCgcugGGaCGCUGAUAa -3'
miRNA:   3'- aGAGGUa----CUCUGGGag--CC-GCGGCUAU- -5'
18278 3' -57.7 NC_004681.1 + 2701 0.67 0.619467
Target:  5'- uUCUCCGUGcaAUUCgcggaCGGCGCCGAa- -3'
miRNA:   3'- -AGAGGUACucUGGGa----GCCGCGGCUau -5'
18278 3' -57.7 NC_004681.1 + 51313 0.67 0.598192
Target:  5'- aUCUCCAUGAcGGCCgggguggcguuCUuggagagaagcaUGGCGCCGAg- -3'
miRNA:   3'- -AGAGGUACU-CUGG-----------GA------------GCCGCGGCUau -5'
18278 3' -57.7 NC_004681.1 + 9202 0.67 0.577026
Target:  5'- --gCCA-GAG-CCCgagccagCGGCGCCGGUGa -3'
miRNA:   3'- agaGGUaCUCuGGGa------GCCGCGGCUAU- -5'
18278 3' -57.7 NC_004681.1 + 60883 0.68 0.53526
Target:  5'- gCUCCuugGUGGGAgCCUUGGC-CUGAUAc -3'
miRNA:   3'- aGAGG---UACUCUgGGAGCCGcGGCUAU- -5'
18278 3' -57.7 NC_004681.1 + 7244 0.68 0.533198
Target:  5'- uUCUCCAggccauccacGACgcggccguccaCCUCGGCGCCGAg- -3'
miRNA:   3'- -AGAGGUacu-------CUG-----------GGAGCCGCGGCUau -5'
18278 3' -57.7 NC_004681.1 + 20217 0.68 0.518844
Target:  5'- cCUCCAggagGGGuCCgaacgugaucgugggCUCGGCGCCGGg- -3'
miRNA:   3'- aGAGGUa---CUCuGG---------------GAGCCGCGGCUau -5'
18278 3' -57.7 NC_004681.1 + 68739 0.68 0.51477
Target:  5'- cCUCCAUGAGGCaggggaagcaCUUGGUGCCc--- -3'
miRNA:   3'- aGAGGUACUCUGg---------GAGCCGCGGcuau -5'
18278 3' -57.7 NC_004681.1 + 66932 0.69 0.46506
Target:  5'- aCUCUGUGGcGGCCCUggugcCGcGCGCCGAg- -3'
miRNA:   3'- aGAGGUACU-CUGGGA-----GC-CGCGGCUau -5'
18278 3' -57.7 NC_004681.1 + 6390 0.7 0.43646
Target:  5'- -gUCgAgggggagGAGGCCC-CGGCGCCGAa- -3'
miRNA:   3'- agAGgUa------CUCUGGGaGCCGCGGCUau -5'
18278 3' -57.7 NC_004681.1 + 24172 0.7 0.415232
Target:  5'- uUCUCC-UGGGACCuaCUCGGCgugcgcaccaacaaGCCGAUc -3'
miRNA:   3'- -AGAGGuACUCUGG--GAGCCG--------------CGGCUAu -5'
18278 3' -57.7 NC_004681.1 + 45433 0.72 0.340969
Target:  5'- cCUCCAUGGccGCCCUCGGUGUggUGAUGa -3'
miRNA:   3'- aGAGGUACUc-UGGGAGCCGCG--GCUAU- -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.