miRNA display CGI


Results 1 - 20 of 63 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
1594 3' -52.5 NC_001347.2 + 714 0.66 0.99722
Target:  5'- gCCaAGGCggcgCCAGCAcGCGCCGUgcaCGUCGc -3'
miRNA:   3'- -GG-UCUGga--GGUUGU-UGUGGCA---GCAGC- -5'
1594 3' -52.5 NC_001347.2 + 3316 0.69 0.967062
Target:  5'- aCCAGACaUCCAAUuACACCGaUGUgGa -3'
miRNA:   3'- -GGUCUGgAGGUUGuUGUGGCaGCAgC- -5'
1594 3' -52.5 NC_001347.2 + 4389 0.66 0.996744
Target:  5'- cCCGGGCuCUCCAucgggaGCggUACCGUUuUCc -3'
miRNA:   3'- -GGUCUG-GAGGU------UGuuGUGGCAGcAGc -5'
1594 3' -52.5 NC_001347.2 + 5683 0.71 0.935736
Target:  5'- -aAGACg-CCGACGAC-UCGUCGUCGg -3'
miRNA:   3'- ggUCUGgaGGUUGUUGuGGCAGCAGC- -5'
1594 3' -52.5 NC_001347.2 + 7619 0.72 0.908848
Target:  5'- --uGGCCUUCAgagACcGCGCCGUCGUUGu -3'
miRNA:   3'- gguCUGGAGGU---UGuUGUGGCAGCAGC- -5'
1594 3' -52.5 NC_001347.2 + 12791 0.71 0.940427
Target:  5'- aCCAGGCCggCCGGCGuuuucacuACGCCGUgGaCGa -3'
miRNA:   3'- -GGUCUGGa-GGUUGU--------UGUGGCAgCaGC- -5'
1594 3' -52.5 NC_001347.2 + 30450 0.66 0.99722
Target:  5'- cUCGGGCCgaaccCCGuCAGCACCccgCGUCa -3'
miRNA:   3'- -GGUCUGGa----GGUuGUUGUGGca-GCAGc -5'
1594 3' -52.5 NC_001347.2 + 37503 0.67 0.992277
Target:  5'- --uGGCCUUCAGCAGuCugCGUUGUUu -3'
miRNA:   3'- gguCUGGAGGUUGUU-GugGCAGCAGc -5'
1594 3' -52.5 NC_001347.2 + 56143 0.73 0.854297
Target:  5'- cCCAuGCCUCCAGCGACucAUgGUCGcUCGg -3'
miRNA:   3'- -GGUcUGGAGGUUGUUG--UGgCAGC-AGC- -5'
1594 3' -52.5 NC_001347.2 + 64190 0.66 0.997084
Target:  5'- aCCGGccgcaacuucuaccAUCUCCGuCGACGgUGUCGUCa -3'
miRNA:   3'- -GGUC--------------UGGAGGUuGUUGUgGCAGCAGc -5'
1594 3' -52.5 NC_001347.2 + 65356 0.66 0.996744
Target:  5'- gCCAcGCgUaCCAACcGCGCCGUgCGUCu -3'
miRNA:   3'- -GGUcUGgA-GGUUGuUGUGGCA-GCAGc -5'
1594 3' -52.5 NC_001347.2 + 78355 0.69 0.976349
Target:  5'- gCGGACCcggcguggugggacCCGGCGGCGCCGUgGUgGg -3'
miRNA:   3'- gGUCUGGa-------------GGUUGUUGUGGCAgCAgC- -5'
1594 3' -52.5 NC_001347.2 + 80388 0.68 0.979983
Target:  5'- cCCAGACCUCCAcGCAA-GCCGUg---- -3'
miRNA:   3'- -GGUCUGGAGGU-UGUUgUGGCAgcagc -5'
1594 3' -52.5 NC_001347.2 + 80966 0.7 0.956945
Target:  5'- gCGGACUaCCAcCGGCGCCGcCGUUGc -3'
miRNA:   3'- gGUCUGGaGGUuGUUGUGGCaGCAGC- -5'
1594 3' -52.5 NC_001347.2 + 81032 0.66 0.994896
Target:  5'- cCCAGACCaaCAGC-ACGCCGggCG-CGc -3'
miRNA:   3'- -GGUCUGGagGUUGuUGUGGCa-GCaGC- -5'
1594 3' -52.5 NC_001347.2 + 81522 0.69 0.968271
Target:  5'- gCuGACUUCC-ACGACguuguuuucaccgucGCCGUCGUCa -3'
miRNA:   3'- gGuCUGGAGGuUGUUG---------------UGGCAGCAGc -5'
1594 3' -52.5 NC_001347.2 + 81961 0.74 0.838629
Target:  5'- uCCAGGCCgacugcagCaauaAACAACACUGcUCGUCGg -3'
miRNA:   3'- -GGUCUGGa-------Gg---UUGUUGUGGC-AGCAGC- -5'
1594 3' -52.5 NC_001347.2 + 82473 0.66 0.99722
Target:  5'- uCUAGGCCgcgCCGACGcuCAUCGgCGUCc -3'
miRNA:   3'- -GGUCUGGa--GGUUGUu-GUGGCaGCAGc -5'
1594 3' -52.5 NC_001347.2 + 85333 0.69 0.970024
Target:  5'- aUCAGcGCCgCCGcCAGCGCCGUCGcccgCGg -3'
miRNA:   3'- -GGUC-UGGaGGUuGUUGUGGCAGCa---GC- -5'
1594 3' -52.5 NC_001347.2 + 85850 0.66 0.99722
Target:  5'- gCAGACCgaggCCGucGC-GCACCGgcucgCGUCc -3'
miRNA:   3'- gGUCUGGa---GGU--UGuUGUGGCa----GCAGc -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.