miRNA display CGI


Results 1 - 20 of 212 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
23836 3' -58.4 NC_005261.1 + 1964 0.8 0.161058
Target:  5'- uACACGUGcgccugcccGACGGCCGGGCCaUCGGCGg -3'
miRNA:   3'- -UGUGCACu--------UUGCCGGCUCGG-GGUCGC- -5'
23836 3' -58.4 NC_005261.1 + 115580 0.79 0.18709
Target:  5'- aACGCGgcgaGGAACuGGCCguacguGAGCCCCAGCGa -3'
miRNA:   3'- -UGUGCa---CUUUG-CCGG------CUCGGGGUCGC- -5'
23836 3' -58.4 NC_005261.1 + 99762 0.77 0.244476
Target:  5'- aGCACGUcggacggggaGAGGCGGcCCGGGUCCCAGUc -3'
miRNA:   3'- -UGUGCA----------CUUUGCC-GGCUCGGGGUCGc -5'
23836 3' -58.4 NC_005261.1 + 34931 0.77 0.250362
Target:  5'- cACGCGgGggGCGGCCGgcgcgacccGGgCCCGGCGg -3'
miRNA:   3'- -UGUGCaCuuUGCCGGC---------UCgGGGUCGC- -5'
23836 3' -58.4 NC_005261.1 + 127674 0.76 0.288149
Target:  5'- -gGCGgGAcggcGGCGGCCGcuGCCCCGGCGg -3'
miRNA:   3'- ugUGCaCU----UUGCCGGCu-CGGGGUCGC- -5'
23836 3' -58.4 NC_005261.1 + 84278 0.76 0.288149
Target:  5'- cGCAgGUGccgccGGCGGCCccGGCCCCGGCGg -3'
miRNA:   3'- -UGUgCACu----UUGCCGGc-UCGGGGUCGC- -5'
23836 3' -58.4 NC_005261.1 + 34690 0.75 0.294866
Target:  5'- -uGCGUGAcgGugGGCCccucgcaccucGAGCCUCAGCGg -3'
miRNA:   3'- ugUGCACU--UugCCGG-----------CUCGGGGUCGC- -5'
23836 3' -58.4 NC_005261.1 + 39390 0.75 0.301705
Target:  5'- -gGCGgcccuGGCGGCgaccCGAGCCCCAGCGg -3'
miRNA:   3'- ugUGCacu--UUGCCG----GCUCGGGGUCGC- -5'
23836 3' -58.4 NC_005261.1 + 90204 0.75 0.308665
Target:  5'- aGCGCG-GggGCGGCgGAGCgCCCucgcGCGg -3'
miRNA:   3'- -UGUGCaCuuUGCCGgCUCG-GGGu---CGC- -5'
23836 3' -58.4 NC_005261.1 + 47154 0.75 0.330278
Target:  5'- -gGCGUc-GGCGGCCGAGaCCaCCAGCGg -3'
miRNA:   3'- ugUGCAcuUUGCCGGCUC-GG-GGUCGC- -5'
23836 3' -58.4 NC_005261.1 + 2802 0.73 0.376775
Target:  5'- -gGCGgccgGGAGgGGCCGggcGGCCCCAGCc -3'
miRNA:   3'- ugUGCa---CUUUgCCGGC---UCGGGGUCGc -5'
23836 3' -58.4 NC_005261.1 + 42263 0.73 0.384942
Target:  5'- cCGCGcGAGGCGGCCGcGCCCagCAGCc -3'
miRNA:   3'- uGUGCaCUUUGCCGGCuCGGG--GUCGc -5'
23836 3' -58.4 NC_005261.1 + 42655 0.73 0.384942
Target:  5'- cGCGCG-GAAccagccaagcgGCGGCCGGGCCgccgCCGGCa -3'
miRNA:   3'- -UGUGCaCUU-----------UGCCGGCUCGG----GGUCGc -5'
23836 3' -58.4 NC_005261.1 + 12015 0.73 0.399091
Target:  5'- --cCGUGAAGCGcucgcccgcgacgcGCuCGAGCCCCAGCc -3'
miRNA:   3'- uguGCACUUUGC--------------CG-GCUCGGGGUCGc -5'
23836 3' -58.4 NC_005261.1 + 91125 0.73 0.410133
Target:  5'- cGCGCGcc--GCGGCCGAgGCCUCAGCc -3'
miRNA:   3'- -UGUGCacuuUGCCGGCU-CGGGGUCGc -5'
23836 3' -58.4 NC_005261.1 + 74417 0.73 0.410133
Target:  5'- cCGCGggcGGGAgGGCCGAGgagagcgcccCCCCGGCGg -3'
miRNA:   3'- uGUGCa--CUUUgCCGGCUC----------GGGGUCGC- -5'
23836 3' -58.4 NC_005261.1 + 111598 0.73 0.410133
Target:  5'- aGCACGcgGAGugggcGCGGCUGGGCUgCGGCGc -3'
miRNA:   3'- -UGUGCa-CUU-----UGCCGGCUCGGgGUCGC- -5'
23836 3' -58.4 NC_005261.1 + 98350 0.73 0.418755
Target:  5'- gACGCGggggcggGGGugGGCgCGGGCUCUGGCGg -3'
miRNA:   3'- -UGUGCa------CUUugCCG-GCUCGGGGUCGC- -5'
23836 3' -58.4 NC_005261.1 + 131021 0.73 0.418755
Target:  5'- cUACGUGuuccaGGCCGAGCgCgCCGGCGa -3'
miRNA:   3'- uGUGCACuuug-CCGGCUCG-G-GGUCGC- -5'
23836 3' -58.4 NC_005261.1 + 106713 0.72 0.427486
Target:  5'- aGCGCugcagGAAGCGGCCcaccucgugcAGCCCCGGCGc -3'
miRNA:   3'- -UGUGca---CUUUGCCGGc---------UCGGGGUCGC- -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.