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
11144 5' -52.7 NC_002794.1 + 8169 0.66 0.991712
Target:  5'- cCCCCGGGCCcGGCgUC-CCgcccggUUUCcCAc -3'
miRNA:   3'- -GGGGCCCGG-UUGaAGaGGa-----AAAGaGU- -5'
11144 5' -52.7 NC_002794.1 + 66042 0.66 0.990543
Target:  5'- uCgUCGGGCCGGCagCggcggCCUgUUCUCGu -3'
miRNA:   3'- -GgGGCCCGGUUGaaGa----GGAaAAGAGU- -5'
11144 5' -52.7 NC_002794.1 + 150538 0.66 0.98625
Target:  5'- -gCCGGGCCGGCgccauggCCg--UCUCGg -3'
miRNA:   3'- ggGGCCCGGUUGaaga---GGaaaAGAGU- -5'
11144 5' -52.7 NC_002794.1 + 19653 0.66 0.984528
Target:  5'- uCCCCGGcGCUggguCUUCUCggagUUUCUCc -3'
miRNA:   3'- -GGGGCC-CGGuu--GAAGAGga--AAAGAGu -5'
11144 5' -52.7 NC_002794.1 + 110289 0.67 0.98245
Target:  5'- uCCUCGGGCCcgagagccgcgggGAC-UCUCCg---CUCGc -3'
miRNA:   3'- -GGGGCCCGG-------------UUGaAGAGGaaaaGAGU- -5'
11144 5' -52.7 NC_002794.1 + 120534 0.67 0.980599
Target:  5'- cCCCCGGGCUGACcag-CCUggUCa-- -3'
miRNA:   3'- -GGGGCCCGGUUGaagaGGAaaAGagu -5'
11144 5' -52.7 NC_002794.1 + 44204 0.67 0.980599
Target:  5'- -gCCGGGCCGACg--UCCgg--CUCGg -3'
miRNA:   3'- ggGGCCCGGUUGaagAGGaaaaGAGU- -5'
11144 5' -52.7 NC_002794.1 + 61959 0.67 0.978376
Target:  5'- cCCCCGaGGCCAGCggCcgCCUg--CUgCAg -3'
miRNA:   3'- -GGGGC-CCGGUUGaaGa-GGAaaaGA-GU- -5'
11144 5' -52.7 NC_002794.1 + 66209 0.67 0.975718
Target:  5'- uCCCCGGGaaAGCUcaccuccUCUCCU--UCUUc -3'
miRNA:   3'- -GGGGCCCggUUGA-------AGAGGAaaAGAGu -5'
11144 5' -52.7 NC_002794.1 + 93086 0.68 0.970579
Target:  5'- uUCCCGGGCUgcGGCcUCUCCUgccuggacUUCUg- -3'
miRNA:   3'- -GGGGCCCGG--UUGaAGAGGAa-------AAGAgu -5'
11144 5' -52.7 NC_002794.1 + 84212 0.68 0.967581
Target:  5'- aCCCCGGGCgcGCUcccUCUCCccgccaccgUCUCc -3'
miRNA:   3'- -GGGGCCCGguUGA---AGAGGaaa------AGAGu -5'
11144 5' -52.7 NC_002794.1 + 79226 0.68 0.967581
Target:  5'- cUCCCGgacGGUCGACUUCUaCCUgcagaCUCAg -3'
miRNA:   3'- -GGGGC---CCGGUUGAAGA-GGAaaa--GAGU- -5'
11144 5' -52.7 NC_002794.1 + 90964 0.68 0.964373
Target:  5'- gCCCGGGCCcGCUUCggCgUggcCUCGu -3'
miRNA:   3'- gGGGCCCGGuUGAAGa-GgAaaaGAGU- -5'
11144 5' -52.7 NC_002794.1 + 1221 0.68 0.957303
Target:  5'- gCCCCGGGgCGugUUCUauaacCCg--UCUCc -3'
miRNA:   3'- -GGGGCCCgGUugAAGA-----GGaaaAGAGu -5'
11144 5' -52.7 NC_002794.1 + 84847 0.69 0.953432
Target:  5'- aCCCCGGGCUGugUggCUCaccgcCUCAg -3'
miRNA:   3'- -GGGGCCCGGUugAa-GAGgaaaaGAGU- -5'
11144 5' -52.7 NC_002794.1 + 112699 0.69 0.940426
Target:  5'- -aCCGcGGCCAGCUUCUCgCgggUCUg- -3'
miRNA:   3'- ggGGC-CCGGUUGAAGAG-GaaaAGAgu -5'
11144 5' -52.7 NC_002794.1 + 53988 0.69 0.935618
Target:  5'- gCCCCGcGCCAGCgUCUCCagcagCUCc -3'
miRNA:   3'- -GGGGCcCGGUUGaAGAGGaaaa-GAGu -5'
11144 5' -52.7 NC_002794.1 + 33515 0.7 0.93057
Target:  5'- aCCCGGGCCAgaGCcUCUCCg------- -3'
miRNA:   3'- gGGGCCCGGU--UGaAGAGGaaaagagu -5'
11144 5' -52.7 NC_002794.1 + 112303 0.7 0.919752
Target:  5'- cCCCCGGGuCCGACUUCggcgCCg------- -3'
miRNA:   3'- -GGGGCCC-GGUUGAAGa---GGaaaagagu -5'
11144 5' -52.7 NC_002794.1 + 120304 0.7 0.907976
Target:  5'- gCCCgGGGCCuuGCUgUUCCg--UCUCGa -3'
miRNA:   3'- -GGGgCCCGGu-UGAaGAGGaaaAGAGU- -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.