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 + 178 0.66 0.396629
Target:  5'- gCGGGCGCGcaucaGCUCGGGGUCcaugugucuGCCUCc- -3'
miRNA:   3'- -GCUCGCGCc----CGAGUUCCAG---------CGGGGcu -5'
12904 5' -62.1 NC_003387.1 + 30223 0.66 0.387981
Target:  5'- uCGAGCGCGccGC-CGAGGccgUCGCCCgGu -3'
miRNA:   3'- -GCUCGCGCc-CGaGUUCC---AGCGGGgCu -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 + 7808 0.66 0.37106
Target:  5'- cCGAGCuGCaacgccuGGCggcCGAGGUCGCCCgGc -3'
miRNA:   3'- -GCUCG-CGc------CCGa--GUUCCAGCGGGgCu -5'
12904 5' -62.1 NC_003387.1 + 16982 0.66 0.362791
Target:  5'- -uGGCGCGGGC---GGGcugcgucaUCGaCCCCGAg -3'
miRNA:   3'- gcUCGCGCCCGaguUCC--------AGC-GGGGCU- -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 + 32043 0.66 0.35465
Target:  5'- cCGAGU-CGGGUcgCAAGucuGUCGCCgCCGAg -3'
miRNA:   3'- -GCUCGcGCCCGa-GUUC---CAGCGG-GGCU- -5'
12904 5' -62.1 NC_003387.1 + 21227 0.66 0.35465
Target:  5'- gCGGGCGCaGGGCgauccggucggCAuGGUgCGCCgCGAc -3'
miRNA:   3'- -GCUCGCG-CCCGa----------GUuCCA-GCGGgGCU- -5'
12904 5' -62.1 NC_003387.1 + 45143 0.66 0.35465
Target:  5'- uCGAgGCGCGGcGCUCgGAGGUgGUCgCGu -3'
miRNA:   3'- -GCU-CGCGCC-CGAG-UUCCAgCGGgGCu -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'
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 + 8471 0.67 0.338758
Target:  5'- aCGGcGgGCGGGCUUGAGGccgaUCGUCCaGAa -3'
miRNA:   3'- -GCU-CgCGCCCGAGUUCC----AGCGGGgCU- -5'
12904 5' -62.1 NC_003387.1 + 17706 0.67 0.315904
Target:  5'- aCGGGCaGCaaGUUCGAGGcggugCGCCCCGGc -3'
miRNA:   3'- -GCUCG-CGccCGAGUUCCa----GCGGGGCU- -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 + 8612 0.67 0.312946
Target:  5'- --cGCGCGGGCaacuaacuacccgCGAgccGGUCGgCCCGAg -3'
miRNA:   3'- gcuCGCGCCCGa------------GUU---CCAGCgGGGCU- -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.