miRNA display CGI


Results 1 - 20 of 69 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
11429 3' -61.2 NC_003085.1 + 38479 1.13 0.000152
Target:  5'- uGCCGCGUCCCCAACGUCUCGCCGGGCa -3'
miRNA:   3'- -CGGCGCAGGGGUUGCAGAGCGGCCCG- -5'
11429 3' -61.2 NC_003085.1 + 20357 0.77 0.070327
Target:  5'- cGCCGCGUCgCCGcUG-CUgaCGCCGGGCa -3'
miRNA:   3'- -CGGCGCAGgGGUuGCaGA--GCGGCCCG- -5'
11429 3' -61.2 NC_003085.1 + 29524 0.77 0.076378
Target:  5'- -gCGCGUCaCCAGCGUCUUGgCgCGGGCg -3'
miRNA:   3'- cgGCGCAGgGGUUGCAGAGC-G-GCCCG- -5'
11429 3' -61.2 NC_003085.1 + 20068 0.75 0.100073
Target:  5'- gGCCGCGcuggcgcagcaacUCCgCCAugGCGUUcUGCCGGGCg -3'
miRNA:   3'- -CGGCGC-------------AGG-GGU--UGCAGaGCGGCCCG- -5'
11429 3' -61.2 NC_003085.1 + 11785 0.73 0.138445
Target:  5'- cGCCGCG-CUCCGGgcgUGUCggcugccccaUCGCCGGGUg -3'
miRNA:   3'- -CGGCGCaGGGGUU---GCAG----------AGCGGCCCG- -5'
11429 3' -61.2 NC_003085.1 + 19117 0.73 0.138445
Target:  5'- cGCCGCagugcgCCCCGcgacaGCGUC-CGCCaGGGCc -3'
miRNA:   3'- -CGGCGca----GGGGU-----UGCAGaGCGG-CCCG- -5'
11429 3' -61.2 NC_003085.1 + 8134 0.73 0.141785
Target:  5'- gGCCaaGUCCCCGggcuucgGCGUgUCGgUGGGCg -3'
miRNA:   3'- -CGGcgCAGGGGU-------UGCAgAGCgGCCCG- -5'
11429 3' -61.2 NC_003085.1 + 25402 0.71 0.189414
Target:  5'- aGCCGCGgcUUCCC-GCGcUUCGCCaGGCg -3'
miRNA:   3'- -CGGCGC--AGGGGuUGCaGAGCGGcCCG- -5'
11429 3' -61.2 NC_003085.1 + 30748 0.71 0.189414
Target:  5'- aGgCGCGUCCCgucuCGUCagGCgGGGCg -3'
miRNA:   3'- -CgGCGCAGGGguu-GCAGagCGgCCCG- -5'
11429 3' -61.2 NC_003085.1 + 43863 0.7 0.231994
Target:  5'- aCCGCGUCaCUCAGCaucGUC-CGCaccaGGGCg -3'
miRNA:   3'- cGGCGCAG-GGGUUG---CAGaGCGg---CCCG- -5'
11429 3' -61.2 NC_003085.1 + 10911 0.7 0.24383
Target:  5'- uCCGCGUCgcucaCCAGCaagggCUUGCCGGGg -3'
miRNA:   3'- cGGCGCAGg----GGUUGca---GAGCGGCCCg -5'
11429 3' -61.2 NC_003085.1 + 41368 0.7 0.24383
Target:  5'- gGCCGCGUCaCCC-ACGUCaugacggUGgUGGGUg -3'
miRNA:   3'- -CGGCGCAG-GGGuUGCAGa------GCgGCCCG- -5'
11429 3' -61.2 NC_003085.1 + 7292 0.7 0.246257
Target:  5'- cGCCGCcaagcucgacgggaaGUCUCCGACGgccaUCGCgGaGGCg -3'
miRNA:   3'- -CGGCG---------------CAGGGGUUGCag--AGCGgC-CCG- -5'
11429 3' -61.2 NC_003085.1 + 26024 0.7 0.249934
Target:  5'- -aUGCGUCCCUgcuGCGcCU-GCUGGGCg -3'
miRNA:   3'- cgGCGCAGGGGu--UGCaGAgCGGCCCG- -5'
11429 3' -61.2 NC_003085.1 + 40899 0.7 0.249934
Target:  5'- cGCCGCGaCCUCAagaccugcgugACGagCUCGCCGcGCg -3'
miRNA:   3'- -CGGCGCaGGGGU-----------UGCa-GAGCGGCcCG- -5'
11429 3' -61.2 NC_003085.1 + 41032 0.69 0.269003
Target:  5'- cGCUgGCGUCCUCcugGGCGgCUUGgCGGGCu -3'
miRNA:   3'- -CGG-CGCAGGGG---UUGCaGAGCgGCCCG- -5'
11429 3' -61.2 NC_003085.1 + 1471 0.69 0.277625
Target:  5'- cGCCGCGUCCuCCcuccgcgacuugcucGAcgcggccCGUCcggCGCuCGGGCa -3'
miRNA:   3'- -CGGCGCAGG-GG---------------UU-------GCAGa--GCG-GCCCG- -5'
11429 3' -61.2 NC_003085.1 + 11573 0.69 0.292014
Target:  5'- cGCCgucgGCGUggugcccaccagcacCUCCGACGUCUgGCCGGccaGCg -3'
miRNA:   3'- -CGG----CGCA---------------GGGGUUGCAGAgCGGCC---CG- -5'
11429 3' -61.2 NC_003085.1 + 41827 0.68 0.296231
Target:  5'- cGCCGCccaagcgCCCCAugaGUCcCGCCcGGCg -3'
miRNA:   3'- -CGGCGca-----GGGGUug-CAGaGCGGcCCG- -5'
11429 3' -61.2 NC_003085.1 + 38679 0.68 0.308436
Target:  5'- cGCUGCGcggaagagguggcaUgcCCCCAGCGUCUUcCCGGcGCc -3'
miRNA:   3'- -CGGCGC--------------A--GGGGUUGCAGAGcGGCC-CG- -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.