miRNA display CGI


Results 1 - 20 of 49 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
12904 5' -62.1 NC_003387.1 + 28016 0.71 0.174063
Target:  5'- aCGAGC-CGGaaccGCUCGGGGUCGCggCCGAc -3'
miRNA:   3'- -GCUCGcGCC----CGAGUUCCAGCGg-GGCU- -5'
12904 5' -62.1 NC_003387.1 + 8612 0.67 0.312946
Target:  5'- --cGCGCGGGCaacuaacuacccgCGAgccGGUCGgCCCGAg -3'
miRNA:   3'- gcuCGCGCCCGa------------GUU---CCAGCgGGGCU- -5'
12904 5' -62.1 NC_003387.1 + 51417 0.67 0.308549
Target:  5'- uCGGcGCucaGCGGG-UCGGGGUCGCgCUCGAa -3'
miRNA:   3'- -GCU-CG---CGCCCgAGUUCCAGCG-GGGCU- -5'
12904 5' -62.1 NC_003387.1 + 47474 0.68 0.294232
Target:  5'- gGGGCG-GGGCc---GGUUGCCCCGc -3'
miRNA:   3'- gCUCGCgCCCGaguuCCAGCGGGGCu -5'
12904 5' -62.1 NC_003387.1 + 29464 0.68 0.273736
Target:  5'- ----gGCGGGCgagaUCGAGGUCGUCaCCGGc -3'
miRNA:   3'- gcucgCGCCCG----AGUUCCAGCGG-GGCU- -5'
12904 5' -62.1 NC_003387.1 + 31837 0.68 0.273736
Target:  5'- -cGGUGCGGGCUCGgcgaccAGGUCGagcagggacaCCCCu- -3'
miRNA:   3'- gcUCGCGCCCGAGU------UCCAGC----------GGGGcu -5'
12904 5' -62.1 NC_003387.1 + 7959 0.69 0.236202
Target:  5'- aCGAGUGCGGccgacCUCAAGGUCgGUgCCGu -3'
miRNA:   3'- -GCUCGCGCCc----GAGUUCCAG-CGgGGCu -5'
12904 5' -62.1 NC_003387.1 + 41537 0.7 0.197462
Target:  5'- gGGGCGgGGGCagucagggcggcgUCAGGGcCGCgCCGGu -3'
miRNA:   3'- gCUCGCgCCCG-------------AGUUCCaGCGgGGCU- -5'
12904 5' -62.1 NC_003387.1 + 40859 0.71 0.178628
Target:  5'- gCGAGCGCGGGaucuuggUCGAGG-CGCaCCuCGGu -3'
miRNA:   3'- -GCUCGCGCCCg------AGUUCCaGCG-GG-GCU- -5'
12904 5' -62.1 NC_003387.1 + 37922 0.67 0.313683
Target:  5'- gCGAGcCGcCGGGCgCAGGGgugcccgaccucgcUCGgCCCGAu -3'
miRNA:   3'- -GCUC-GC-GCCCGaGUUCC--------------AGCgGGGCU- -5'
12904 5' -62.1 NC_003387.1 + 8471 0.67 0.338758
Target:  5'- aCGGcGgGCGGGCUUGAGGccgaUCGUCCaGAa -3'
miRNA:   3'- -GCU-CgCGCCCGAGUUCC----AGCGGGgCU- -5'
12904 5' -62.1 NC_003387.1 + 8181 0.67 0.338758
Target:  5'- aCGAGC-UGGGCUCGcccucgggcGGGUUGgCgCCGAc -3'
miRNA:   3'- -GCUCGcGCCCGAGU---------UCCAGCgG-GGCU- -5'
12904 5' -62.1 NC_003387.1 + 4510 0.66 0.379457
Target:  5'- -cGGCGCGGGCUCGGcGaaCGCCuuGc -3'
miRNA:   3'- gcUCGCGCCCGAGUU-CcaGCGGggCu -5'
12904 5' -62.1 NC_003387.1 + 40086 0.66 0.379457
Target:  5'- gCGAGCGCccgcgGGGCUCuAGGU-GCCgUCGu -3'
miRNA:   3'- -GCUCGCG-----CCCGAGuUCCAgCGG-GGCu -5'
12904 5' -62.1 NC_003387.1 + 50279 0.66 0.379457
Target:  5'- uGAcGCGCGGGUcgUCGuuGcCGUCCCGGu -3'
miRNA:   3'- gCU-CGCGCCCG--AGUucCaGCGGGGCU- -5'
12904 5' -62.1 NC_003387.1 + 51609 0.66 0.379457
Target:  5'- gCGGGCGCagGGGCa-AGGGUgGCCgUCGAc -3'
miRNA:   3'- -GCUCGCG--CCCGagUUCCAgCGG-GGCU- -5'
12904 5' -62.1 NC_003387.1 + 13859 0.66 0.362791
Target:  5'- gCGAGCGCaGcGCgaccGGGUCcauaccgaccgGCCCCGAa -3'
miRNA:   3'- -GCUCGCGcC-CGagu-UCCAG-----------CGGGGCU- -5'
12904 5' -62.1 NC_003387.1 + 18932 0.66 0.362791
Target:  5'- aCGAGCGCcucGGGCgacgacAGGUCGaugCCCGu -3'
miRNA:   3'- -GCUCGCG---CCCGagu---UCCAGCg--GGGCu -5'
12904 5' -62.1 NC_003387.1 + 44858 0.66 0.361971
Target:  5'- --cGCGCGGGCcagcuugUCGAGGUCGggCCGc -3'
miRNA:   3'- gcuCGCGCCCG-------AGUUCCAGCggGGCu -5'
12904 5' -62.1 NC_003387.1 + 49451 0.66 0.346639
Target:  5'- gCGcAGUGUGGuGCUCAAGGaugCGCaCCaCGGu -3'
miRNA:   3'- -GC-UCGCGCC-CGAGUUCCa--GCG-GG-GCU- -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.