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 + 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 + 32165 0.69 0.320866
Target:  5'- -aGGGCaCCAccaucGGCuCCGAGGUgGAGCCg -3'
miRNA:   3'- ggCUCG-GGU-----UCG-GGCUCCGaCUCGGg -5'
19442 3' -61.3 NC_004685.1 + 17061 0.69 0.335929
Target:  5'- cCUGAGgCCAugucagAGCUgGAGcGCUG-GCCCa -3'
miRNA:   3'- -GGCUCgGGU------UCGGgCUC-CGACuCGGG- -5'
19442 3' -61.3 NC_004685.1 + 21935 0.68 0.351501
Target:  5'- gCCGAGCCUGaggcgaccccucGGCuCCGAGGCgcgcAGCUa -3'
miRNA:   3'- -GGCUCGGGU------------UCG-GGCUCCGac--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 + 16952 0.68 0.359476
Target:  5'- -aGGGUCU--GCCUGAGGCUGgcGGCCa -3'
miRNA:   3'- ggCUCGGGuuCGGGCUCCGAC--UCGGg -5'
19442 3' -61.3 NC_004685.1 + 34592 0.67 0.418754
Target:  5'- gCCGAGCgCCuGG-CCGAGGaaGAGUCg -3'
miRNA:   3'- -GGCUCG-GGuUCgGGCUCCgaCUCGGg -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 + 48017 0.67 0.427696
Target:  5'- gUCGAGCgUGAccuCCaCGGGGCUGuacGGCCCa -3'
miRNA:   3'- -GGCUCGgGUUc--GG-GCUCCGAC---UCGGG- -5'
19442 3' -61.3 NC_004685.1 + 68513 0.69 0.306316
Target:  5'- gCGGGgCCGccAGUCCGAugcggGGCUGuGGCCCc -3'
miRNA:   3'- gGCUCgGGU--UCGGGCU-----CCGAC-UCGGG- -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 + 47784 0.7 0.288162
Target:  5'- aCGGGCgUAAGCCCaAGGCccgucaguuggaccuUGAGCuCCg -3'
miRNA:   3'- gGCUCGgGUUCGGGcUCCG---------------ACUCG-GG- -5'
19442 3' -61.3 NC_004685.1 + 21894 0.91 0.009344
Target:  5'- nCGAGgCUGAGCCCGAGGCUGAGCCa -3'
miRNA:   3'- gGCUCgGGUUCGGGCUCCGACUCGGg -5'
19442 3' -61.3 NC_004685.1 + 23331 0.77 0.087866
Target:  5'- aUGAGCCUgagguccugGAGUCUGAGGCcgagGAGCCCg -3'
miRNA:   3'- gGCUCGGG---------UUCGGGCUCCGa---CUCGGG- -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 + 28057 0.73 0.187948
Target:  5'- gCGGG-CCAAGgCUGAGGCUGAGgUCg -3'
miRNA:   3'- gGCUCgGGUUCgGGCUCCGACUCgGG- -5'
19442 3' -61.3 NC_004685.1 + 34361 0.73 0.187948
Target:  5'- gCCGAucccGCCgAAGCCUGcGGCUGGaCCCg -3'
miRNA:   3'- -GGCU----CGGgUUCGGGCuCCGACUcGGG- -5'
19442 3' -61.3 NC_004685.1 + 23815 0.72 0.205796
Target:  5'- aCUGAGCCgcuggacgacgaaGAGCCCGAGacccCUGAGCCg -3'
miRNA:   3'- -GGCUCGGg------------UUCGGGCUCc---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 + 8468 0.71 0.229583
Target:  5'- aCGGGUgcggCCGcGCuggCCGAGGCUGAGCgCCg -3'
miRNA:   3'- gGCUCG----GGUuCG---GGCUCCGACUCG-GG- -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.