miRNA display CGI


Results 1 - 20 of 24 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
31195 3' -61.9 NC_006560.1 + 17994 0.66 0.62156
Target:  5'- gAGCGGGcgcgUCCUGGAGaGGGCgcacGCg -3'
miRNA:   3'- gUCGUCC----AGGACCUCcCCCGaca-CGa -5'
31195 3' -61.9 NC_006560.1 + 4986 0.66 0.611574
Target:  5'- gAGcCGGGUCCgagccGGGGGCgggGUGCc -3'
miRNA:   3'- gUC-GUCCAGGaccu-CCCCCGa--CACGa -5'
31195 3' -61.9 NC_006560.1 + 8860 0.66 0.611574
Target:  5'- gGGCGGGgucggUCUGGGGuGGGGgaG-GCg -3'
miRNA:   3'- gUCGUCCa----GGACCUC-CCCCgaCaCGa -5'
31195 3' -61.9 NC_006560.1 + 126053 0.66 0.605589
Target:  5'- gGGCGGGggcgauguggcauuuUCCcgGGAGGGGGgUGUuCUa -3'
miRNA:   3'- gUCGUCC---------------AGGa-CCUCCCCCgACAcGA- -5'
31195 3' -61.9 NC_006560.1 + 71337 0.66 0.601602
Target:  5'- -cGCGGGggCgggGGAGGGGGCg--GCg -3'
miRNA:   3'- guCGUCCagGa--CCUCCCCCGacaCGa -5'
31195 3' -61.9 NC_006560.1 + 49691 0.66 0.601602
Target:  5'- uGGUGGGUgUguauaugGGGGGGGGggGUGCg -3'
miRNA:   3'- gUCGUCCAgGa------CCUCCCCCgaCACGa -5'
31195 3' -61.9 NC_006560.1 + 140189 0.66 0.59563
Target:  5'- gAGCGGGuuggcgagcuccggcUCCaGGAGGGGGCgccacGCg -3'
miRNA:   3'- gUCGUCC---------------AGGaCCUCCCCCGaca--CGa -5'
31195 3' -61.9 NC_006560.1 + 131364 0.67 0.571844
Target:  5'- --cCGGGacccCCUGGcgcGGGGGGCgcgGUGCUg -3'
miRNA:   3'- gucGUCCa---GGACC---UCCCCCGa--CACGA- -5'
31195 3' -61.9 NC_006560.1 + 25987 0.67 0.561998
Target:  5'- gGGCgAGGgCCgcggggGGAGGGGcGCcGUGCg -3'
miRNA:   3'- gUCG-UCCaGGa-----CCUCCCC-CGaCACGa -5'
31195 3' -61.9 NC_006560.1 + 42063 0.67 0.54245
Target:  5'- aGGCGGccUCCgcgGGcGGGGGCUcGUGCa -3'
miRNA:   3'- gUCGUCc-AGGa--CCuCCCCCGA-CACGa -5'
31195 3' -61.9 NC_006560.1 + 17477 0.67 0.54245
Target:  5'- gGGguGaGUCCgccGGGGGGGGUgggGCUg -3'
miRNA:   3'- gUCguC-CAGGa--CCUCCCCCGacaCGA- -5'
31195 3' -61.9 NC_006560.1 + 26972 0.67 0.53276
Target:  5'- aGGCGGGgcg-GGGGGGGGCgg-GCg -3'
miRNA:   3'- gUCGUCCaggaCCUCCCCCGacaCGa -5'
31195 3' -61.9 NC_006560.1 + 118374 0.67 0.531795
Target:  5'- -cGCGGG-CCUGGAgcccccgGGGGGCgg-GCg -3'
miRNA:   3'- guCGUCCaGGACCU-------CCCCCGacaCGa -5'
31195 3' -61.9 NC_006560.1 + 143687 0.68 0.513573
Target:  5'- gAGCAGG-CaggGGAGGGGGCgGgacgagGCg -3'
miRNA:   3'- gUCGUCCaGga-CCUCCCCCGaCa-----CGa -5'
31195 3' -61.9 NC_006560.1 + 64978 0.68 0.504086
Target:  5'- uCGGCGGGgccggCCgccGcGGGGGGGCUuGUGUc -3'
miRNA:   3'- -GUCGUCCa----GGa--C-CUCCCCCGA-CACGa -5'
31195 3' -61.9 NC_006560.1 + 132234 0.68 0.494675
Target:  5'- -cGCGGGgcCCUGGc-GGGGCUGUGg- -3'
miRNA:   3'- guCGUCCa-GGACCucCCCCGACACga -5'
31195 3' -61.9 NC_006560.1 + 11114 0.68 0.485345
Target:  5'- gGGCGGGg---GGGGGGGGCUcaGCg -3'
miRNA:   3'- gUCGUCCaggaCCUCCCCCGAcaCGa -5'
31195 3' -61.9 NC_006560.1 + 131669 0.68 0.457878
Target:  5'- cCGGCgAGGcCCUGGcgggcGGGGGGCUGcuccGCc -3'
miRNA:   3'- -GUCG-UCCaGGACC-----UCCCCCGACa---CGa -5'
31195 3' -61.9 NC_006560.1 + 122795 0.69 0.431264
Target:  5'- uCGGCGGGUCC-GGGGGGuacGGCgagGUGg- -3'
miRNA:   3'- -GUCGUCCAGGaCCUCCC---CCGa--CACga -5'
31195 3' -61.9 NC_006560.1 + 76722 0.69 0.414033
Target:  5'- cCGGC-GGcCCUGGAGGcGGcgcgcgagcaGCUGUGCg -3'
miRNA:   3'- -GUCGuCCaGGACCUCC-CC----------CGACACGa -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.