miRNA display CGI


Results 1 - 20 of 64 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
19442 3' -61.3 NC_004685.1 + 398 0.66 0.477844
Target:  5'- cUCGAGCUgcucguaggcggcggCGAGCUCGGGGCUaAGCa- -3'
miRNA:   3'- -GGCUCGG---------------GUUCGGGCUCCGAcUCGgg -5'
19442 3' -61.3 NC_004685.1 + 499 0.68 0.354676
Target:  5'- cCCGAGCUCGccgccgccuacgagcAGCUCGAGGC--GGCUg -3'
miRNA:   3'- -GGCUCGGGU---------------UCGGGCUCCGacUCGGg -5'
19442 3' -61.3 NC_004685.1 + 1039 0.69 0.328334
Target:  5'- aCCGuGCCCcgcauccGCCCGcAGGaCUGcGGCCUg -3'
miRNA:   3'- -GGCuCGGGuu-----CGGGC-UCC-GAC-UCGGG- -5'
19442 3' -61.3 NC_004685.1 + 1040 0.68 0.351501
Target:  5'- cCCGAGCaCCAgucgguguugAGCCgCG-GGUUGGuguuGCCCg -3'
miRNA:   3'- -GGCUCG-GGU----------UCGG-GCuCCGACU----CGGG- -5'
19442 3' -61.3 NC_004685.1 + 1774 0.72 0.218494
Target:  5'- aUGGGCU--GGCCCGAcGGCUGGGUCa -3'
miRNA:   3'- gGCUCGGguUCGGGCU-CCGACUCGGg -5'
19442 3' -61.3 NC_004685.1 + 2093 0.66 0.483596
Target:  5'- aUCGGGuCCCAuucGGCCCaGGGUUGAucggauguugGCUCg -3'
miRNA:   3'- -GGCUC-GGGU---UCGGGcUCCGACU----------CGGG- -5'
19442 3' -61.3 NC_004685.1 + 2455 0.66 0.493255
Target:  5'- gCCGAacGCU--GGCCCGGGGU---GCCCa -3'
miRNA:   3'- -GGCU--CGGguUCGGGCUCCGacuCGGG- -5'
19442 3' -61.3 NC_004685.1 + 3347 0.66 0.455183
Target:  5'- aCCGAaCCCAaaccGGCgCCGAuGGUccGGCCCg -3'
miRNA:   3'- -GGCUcGGGU----UCG-GGCU-CCGacUCGGG- -5'
19442 3' -61.3 NC_004685.1 + 4043 0.79 0.067035
Target:  5'- aCCGcGCCCGAGCCUGAGccGCUGAggGUCCa -3'
miRNA:   3'- -GGCuCGGGUUCGGGCUC--CGACU--CGGG- -5'
19442 3' -61.3 NC_004685.1 + 4118 0.71 0.247102
Target:  5'- cCCGAaCCCGAGCCgCGcgaAGGCc-AGCCCg -3'
miRNA:   3'- -GGCUcGGGUUCGG-GC---UCCGacUCGGG- -5'
19442 3' -61.3 NC_004685.1 + 6685 0.73 0.183238
Target:  5'- gCCGGGgCCAaggAGCCCGAGG-UGGGCg- -3'
miRNA:   3'- -GGCUCgGGU---UCGGGCUCCgACUCGgg -5'
19442 3' -61.3 NC_004685.1 + 6948 0.7 0.292275
Target:  5'- gCUGAGCCgGGGCacCCGGGGUcacggcggGAGCCg -3'
miRNA:   3'- -GGCUCGGgUUCG--GGCUCCGa-------CUCGGg -5'
19442 3' -61.3 NC_004685.1 + 8185 0.69 0.299232
Target:  5'- aCGAGgCCGGGUUCGAGGa-GGGCuCCa -3'
miRNA:   3'- gGCUCgGGUUCGGGCUCCgaCUCG-GG- -5'
19442 3' -61.3 NC_004685.1 + 8468 0.71 0.229583
Target:  5'- aCGGGUgcggCCGcGCuggCCGAGGCUGAGCgCCg -3'
miRNA:   3'- gGCUCG----GGUuCG---GGCUCCGACUCG-GG- -5'
19442 3' -61.3 NC_004685.1 + 8827 0.67 0.445913
Target:  5'- gUCGAGCUCGGGgaugCCGAuGGuCUG-GCCCu -3'
miRNA:   3'- -GGCUCGGGUUCg---GGCU-CC-GACuCGGG- -5'
19442 3' -61.3 NC_004685.1 + 9301 0.72 0.213124
Target:  5'- cCCGAGCCUaacagcggcggcGAGCuuGAGGCauugGAGCa- -3'
miRNA:   3'- -GGCUCGGG------------UUCGggCUCCGa---CUCGgg -5'
19442 3' -61.3 NC_004685.1 + 11884 0.67 0.427696
Target:  5'- gUCGAGCUCAucgAGaCCGAGGgUGAcaGCCa -3'
miRNA:   3'- -GGCUCGGGU---UCgGGCUCCgACU--CGGg -5'
19442 3' -61.3 NC_004685.1 + 14083 0.67 0.427696
Target:  5'- gCCGAGgcauCCCAGGCgUCGAcGuGCUGAuGUCCg -3'
miRNA:   3'- -GGCUC----GGGUUCG-GGCU-C-CGACU-CGGG- -5'
19442 3' -61.3 NC_004685.1 + 15645 0.66 0.455183
Target:  5'- cCCGAGgagGAGCCCGAGGCUcgcgcguuGCCg -3'
miRNA:   3'- -GGCUCgggUUCGGGCUCCGAcu------CGGg -5'
19442 3' -61.3 NC_004685.1 + 15708 0.66 0.483596
Target:  5'- cCCGAGuCCUggGCCaccccgaguUGGGGCUcGGCgCa -3'
miRNA:   3'- -GGCUC-GGGuuCGG---------GCUCCGAcUCGgG- -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.