miRNA display CGI


Results 1 - 20 of 26 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
20429 5' -55.4 NC_004688.1 + 72810 0.66 0.885699
Target:  5'- gCAGAuCUUCUUgGCcuCCGCgGCGCCc -3'
miRNA:   3'- gGUUUuGAAGGAgCG--GGCGaCGCGGu -5'
20429 5' -55.4 NC_004688.1 + 61277 0.66 0.885699
Target:  5'- -aAGAACUUCUUCGcCCCGCUuuGUgGg -3'
miRNA:   3'- ggUUUUGAAGGAGC-GGGCGAcgCGgU- -5'
20429 5' -55.4 NC_004688.1 + 53576 0.66 0.878507
Target:  5'- -gGGAACUUCUUgGUgCGCUGCcuGCCc -3'
miRNA:   3'- ggUUUUGAAGGAgCGgGCGACG--CGGu -5'
20429 5' -55.4 NC_004688.1 + 21077 0.66 0.878507
Target:  5'- gCGGAACUUCCagcUCGCCgaagaGgUGaCGCCGa -3'
miRNA:   3'- gGUUUUGAAGG---AGCGGg----CgAC-GCGGU- -5'
20429 5' -55.4 NC_004688.1 + 27176 0.66 0.878507
Target:  5'- aUAAGGCggcgcaugUUUUCGgCCGaCUGCGCCGa -3'
miRNA:   3'- gGUUUUGa-------AGGAGCgGGC-GACGCGGU- -5'
20429 5' -55.4 NC_004688.1 + 78867 0.66 0.863434
Target:  5'- cCCAGGACggagUCCUgcaGCCCcaGCUGaGCCc -3'
miRNA:   3'- -GGUUUUGa---AGGAg--CGGG--CGACgCGGu -5'
20429 5' -55.4 NC_004688.1 + 1859 0.66 0.863434
Target:  5'- -gAGGAUggugCCagGCCCGCgguucGCGCCAa -3'
miRNA:   3'- ggUUUUGaa--GGagCGGGCGa----CGCGGU- -5'
20429 5' -55.4 NC_004688.1 + 68686 0.66 0.850742
Target:  5'- gUCAAAGCggcgaCUggaucugcaaguggcCGCCCGCUGCuGCCu -3'
miRNA:   3'- -GGUUUUGaag--GA---------------GCGGGCGACG-CGGu -5'
20429 5' -55.4 NC_004688.1 + 52813 0.66 0.847484
Target:  5'- cCCAAuGCUUgCUgGCCgCGCU-CGCCc -3'
miRNA:   3'- -GGUUuUGAAgGAgCGG-GCGAcGCGGu -5'
20429 5' -55.4 NC_004688.1 + 76120 0.67 0.839197
Target:  5'- gCAGGACgcCCUCGCCCaGCUcgGCUAg -3'
miRNA:   3'- gGUUUUGaaGGAGCGGG-CGAcgCGGU- -5'
20429 5' -55.4 NC_004688.1 + 69507 0.67 0.838357
Target:  5'- aCCGGGAUUUCCUCGggcuccuCCCaggGCUugacGUGCCAg -3'
miRNA:   3'- -GGUUUUGAAGGAGC-------GGG---CGA----CGCGGU- -5'
20429 5' -55.4 NC_004688.1 + 4225 0.67 0.822037
Target:  5'- -gAGAGCUUgauagaCCUCaGCgCCGCggGCGCCGa -3'
miRNA:   3'- ggUUUUGAA------GGAG-CG-GGCGa-CGCGGU- -5'
20429 5' -55.4 NC_004688.1 + 28262 0.67 0.807782
Target:  5'- gCCGAAGCcgacgccgcgguagUCCUCGCCCacgugcgaCUGCGUCc -3'
miRNA:   3'- -GGUUUUGa-------------AGGAGCGGGc-------GACGCGGu -5'
20429 5' -55.4 NC_004688.1 + 23973 0.67 0.80415
Target:  5'- cCCGGAGaugCC-CGCCCcggccuuCUGCGCCAg -3'
miRNA:   3'- -GGUUUUgaaGGaGCGGGc------GACGCGGU- -5'
20429 5' -55.4 NC_004688.1 + 26139 0.67 0.803238
Target:  5'- gCCGAGugcgccaccugccGC-UCCacCGCCCGCgGCGCCc -3'
miRNA:   3'- -GGUUU-------------UGaAGGa-GCGGGCGaCGCGGu -5'
20429 5' -55.4 NC_004688.1 + 18863 0.68 0.785608
Target:  5'- aCGGGugUggcacgCC-CGUCUGUUGCGCCAa -3'
miRNA:   3'- gGUUUugAa-----GGaGCGGGCGACGCGGU- -5'
20429 5' -55.4 NC_004688.1 + 37238 0.68 0.75673
Target:  5'- cCCGugGCUUCaUUCGCCC-CUGUgguGCCAg -3'
miRNA:   3'- -GGUuuUGAAG-GAGCGGGcGACG---CGGU- -5'
20429 5' -55.4 NC_004688.1 + 5283 0.68 0.746859
Target:  5'- uCCAGGuCUUCUUCGCcaaCCGUgaaGCGCCc -3'
miRNA:   3'- -GGUUUuGAAGGAGCG---GGCGa--CGCGGu -5'
20429 5' -55.4 NC_004688.1 + 85738 0.69 0.72681
Target:  5'- -gGAAGCUUCUUC-CCCGCgcgGUGCUu -3'
miRNA:   3'- ggUUUUGAAGGAGcGGGCGa--CGCGGu -5'
20429 5' -55.4 NC_004688.1 + 96595 0.7 0.685759
Target:  5'- aCCGAGACgcgCCgaaauuacCGCCgGCUGCucuGCCAa -3'
miRNA:   3'- -GGUUUUGaa-GGa-------GCGGgCGACG---CGGU- -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.