miRNA display CGI


Results 1 - 20 of 32 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
13107 3' -61.7 NC_003401.1 + 21628 0.75 0.208643
Target:  5'- -aCGCGCaGCggaCGGCCGCGGCaccuucGGGUGCg -3'
miRNA:   3'- agGCGCG-CGa--GCUGGUGCCG------CCCAUG- -5'
13107 3' -61.7 NC_003401.1 + 15032 0.66 0.66111
Target:  5'- uUCCGUGCGCcacgcgCGACgGCGaCGcGGUGa -3'
miRNA:   3'- -AGGCGCGCGa-----GCUGgUGCcGC-CCAUg -5'
13107 3' -61.7 NC_003401.1 + 18821 0.66 0.66111
Target:  5'- --aGCGCGCg-GAUCGCGaGCuGGUGCu -3'
miRNA:   3'- aggCGCGCGagCUGGUGC-CGcCCAUG- -5'
13107 3' -61.7 NC_003401.1 + 118183 0.66 0.658154
Target:  5'- cCCGCGgGCgacccCGGCgGCGGCaccgcgggcgcuggGGGUGa -3'
miRNA:   3'- aGGCGCgCGa----GCUGgUGCCG--------------CCCAUg -5'
13107 3' -61.7 NC_003401.1 + 122773 0.66 0.641374
Target:  5'- cUgGCGaCGCUUG-CCACGGUucGGUGCg -3'
miRNA:   3'- aGgCGC-GCGAGCuGGUGCCGc-CCAUG- -5'
13107 3' -61.7 NC_003401.1 + 12859 0.66 0.635445
Target:  5'- cUCCGCGCgagcaucaacaagguGCUgGAggagcucuCCAgGGCGuGGUGCc -3'
miRNA:   3'- -AGGCGCG---------------CGAgCU--------GGUgCCGC-CCAUG- -5'
13107 3' -61.7 NC_003401.1 + 132388 0.66 0.631492
Target:  5'- gCCGCGCGC-CgGGCCGCuuucgguucGCGGGgcCg -3'
miRNA:   3'- aGGCGCGCGaG-CUGGUGc--------CGCCCauG- -5'
13107 3' -61.7 NC_003401.1 + 52457 0.66 0.611736
Target:  5'- aCCGcCGUGCUCGGaCGCGGCucGUAUg -3'
miRNA:   3'- aGGC-GCGCGAGCUgGUGCCGccCAUG- -5'
13107 3' -61.7 NC_003401.1 + 27751 0.66 0.611736
Target:  5'- cCUGCGCGCUCuGgUACGGCuguGGG-GCg -3'
miRNA:   3'- aGGCGCGCGAGcUgGUGCCG---CCCaUG- -5'
13107 3' -61.7 NC_003401.1 + 44076 0.67 0.601876
Target:  5'- cCUGUGCGuUUUGuCCGCGuuaauuccgcGCGGGUGCg -3'
miRNA:   3'- aGGCGCGC-GAGCuGGUGC----------CGCCCAUG- -5'
13107 3' -61.7 NC_003401.1 + 8044 0.73 0.269818
Target:  5'- gCgGCGUGuCUCGACCGCGGgguccucacgGGGUGCg -3'
miRNA:   3'- aGgCGCGC-GAGCUGGUGCCg---------CCCAUG- -5'
13107 3' -61.7 NC_003401.1 + 15721 0.7 0.380876
Target:  5'- cUCCGCGUGUUCuccugccugcuggaGGCCGCGGCcaGGGa-- -3'
miRNA:   3'- -AGGCGCGCGAG--------------CUGGUGCCG--CCCaug -5'
13107 3' -61.7 NC_003401.1 + 26914 0.69 0.441962
Target:  5'- aCUGUGgGCUCGGgCA-GGCGGaGUACu -3'
miRNA:   3'- aGGCGCgCGAGCUgGUgCCGCC-CAUG- -5'
13107 3' -61.7 NC_003401.1 + 22628 0.69 0.468626
Target:  5'- cUCGcCGUGCUCGGCCACGGUugacGGcGUcCa -3'
miRNA:   3'- aGGC-GCGCGAGCUGGUGCCG----CC-CAuG- -5'
13107 3' -61.7 NC_003401.1 + 23260 0.68 0.543372
Target:  5'- uUCCGUGUGUUUcgcgGGCCGgGGUcGGUACg -3'
miRNA:   3'- -AGGCGCGCGAG----CUGGUgCCGcCCAUG- -5'
13107 3' -61.7 NC_003401.1 + 117846 0.67 0.600891
Target:  5'- aCCGC-CGgaCGACCccggcgccaaagaGCGGCcgauGGGUACg -3'
miRNA:   3'- aGGCGcGCgaGCUGG-------------UGCCG----CCCAUG- -5'
13107 3' -61.7 NC_003401.1 + 122572 0.66 0.66111
Target:  5'- gCCGCGCGCUg---CGCGGCGGa--- -3'
miRNA:   3'- aGGCGCGCGAgcugGUGCCGCCcaug -5'
13107 3' -61.7 NC_003401.1 + 21773 0.75 0.208643
Target:  5'- gUCCGCuGCGCgugccgcggCGACCACGGCGaGcUGCa -3'
miRNA:   3'- -AGGCG-CGCGa--------GCUGGUGCCGC-CcAUG- -5'
13107 3' -61.7 NC_003401.1 + 124411 0.72 0.308895
Target:  5'- gCCcCGUGCUUGACCcacggGCGGCGGGa-- -3'
miRNA:   3'- aGGcGCGCGAGCUGG-----UGCCGCCCaug -5'
13107 3' -61.7 NC_003401.1 + 105840 0.72 0.315812
Target:  5'- cCCGUGgGCUgucCGuACUcguACGGCGGGUGCu -3'
miRNA:   3'- aGGCGCgCGA---GC-UGG---UGCCGCCCAUG- -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.