miRNA display CGI


Results 1 - 20 of 47 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
1583 5' -58.3 NC_001347.2 + 626 0.68 0.780227
Target:  5'- gGCuGUGCGCuccaguGGUacgcgCCUGCcGCGCGUCu -3'
miRNA:   3'- aCG-CACGCGu-----CCA-----GGGCGuUGUGCAG- -5'
1583 5' -58.3 NC_001347.2 + 1239 0.66 0.883136
Target:  5'- cGCGccaUGCGCAaguGGUCgcagCGCGACGCGg- -3'
miRNA:   3'- aCGC---ACGCGU---CCAGg---GCGUUGUGCag -5'
1583 5' -58.3 NC_001347.2 + 2209 0.69 0.724752
Target:  5'- aGCGaUG-GCGGGUCCgGCG--GCGUCg -3'
miRNA:   3'- aCGC-ACgCGUCCAGGgCGUugUGCAG- -5'
1583 5' -58.3 NC_001347.2 + 22506 0.66 0.901752
Target:  5'- cGUGUGCaCGGGcUUuuGCGgagaaagGCGCGUCa -3'
miRNA:   3'- aCGCACGcGUCC-AGggCGU-------UGUGCAG- -5'
1583 5' -58.3 NC_001347.2 + 37935 0.75 0.404662
Target:  5'- cGCGgcGCGCGGGUgCagguGCAGCGCGUCc -3'
miRNA:   3'- aCGCa-CGCGUCCAgGg---CGUUGUGCAG- -5'
1583 5' -58.3 NC_001347.2 + 38277 0.66 0.86928
Target:  5'- cGCGUGCGC--GUCCgCGUuaGGCACG-Ca -3'
miRNA:   3'- aCGCACGCGucCAGG-GCG--UUGUGCaG- -5'
1583 5' -58.3 NC_001347.2 + 40985 0.66 0.896166
Target:  5'- cUGCuUGCGCacAGG-CCCGcCAACACcUCu -3'
miRNA:   3'- -ACGcACGCG--UCCaGGGC-GUUGUGcAG- -5'
1583 5' -58.3 NC_001347.2 + 53742 0.69 0.734231
Target:  5'- cGCGUGcCGCGGGUgCgCGCAGaagaAUGUUg -3'
miRNA:   3'- aCGCAC-GCGUCCAgG-GCGUUg---UGCAG- -5'
1583 5' -58.3 NC_001347.2 + 78378 0.7 0.70558
Target:  5'- gGCG-GCGCcguggugggAGGaCCCGCGGgcCACGUCg -3'
miRNA:   3'- aCGCaCGCG---------UCCaGGGCGUU--GUGCAG- -5'
1583 5' -58.3 NC_001347.2 + 78674 0.69 0.724752
Target:  5'- gGcCGUGCGCaAGG-CgCGCGACGCGg- -3'
miRNA:   3'- aC-GCACGCG-UCCaGgGCGUUGUGCag -5'
1583 5' -58.3 NC_001347.2 + 87660 0.66 0.896166
Target:  5'- cGCGUGCGgauCAGG-CCCGaCAuccagaccgugaGCACcGUCu -3'
miRNA:   3'- aCGCACGC---GUCCaGGGC-GU------------UGUG-CAG- -5'
1583 5' -58.3 NC_001347.2 + 90224 0.66 0.876309
Target:  5'- gGCGUG-GCGGcGUCguuuuUCGgAGCGCGUCg -3'
miRNA:   3'- aCGCACgCGUC-CAG-----GGCgUUGUGCAG- -5'
1583 5' -58.3 NC_001347.2 + 98263 0.69 0.724752
Target:  5'- cGCGUGUGCGGcGUaccgcugauacUCUGCAACGCGcCc -3'
miRNA:   3'- aCGCACGCGUC-CA-----------GGGCGUUGUGCaG- -5'
1583 5' -58.3 NC_001347.2 + 102457 0.71 0.60752
Target:  5'- cGCGUacGaCGCgAGGUCCCGC-GCACGg- -3'
miRNA:   3'- aCGCA--C-GCG-UCCAGGGCGuUGUGCag -5'
1583 5' -58.3 NC_001347.2 + 117901 0.7 0.66661
Target:  5'- gGCG-GCgGCGGGUCCCGUgauGGCAuCGUg -3'
miRNA:   3'- aCGCaCG-CGUCCAGGGCG---UUGU-GCAg -5'
1583 5' -58.3 NC_001347.2 + 126393 0.66 0.876309
Target:  5'- -aCGUGCGCAGcUUCUGCAcGCGCGa- -3'
miRNA:   3'- acGCACGCGUCcAGGGCGU-UGUGCag -5'
1583 5' -58.3 NC_001347.2 + 136156 0.72 0.558672
Target:  5'- aGCGgGCGCAGcGUgcggaCCGCAGCACGg- -3'
miRNA:   3'- aCGCaCGCGUC-CAg----GGCGUUGUGCag -5'
1583 5' -58.3 NC_001347.2 + 136464 0.66 0.894901
Target:  5'- gGCGcaUGCGCAGGgcgacccUCCCGCGggcccuggcccgcGCAUG-Cg -3'
miRNA:   3'- aCGC--ACGCGUCC-------AGGGCGU-------------UGUGCaG- -5'
1583 5' -58.3 NC_001347.2 + 142207 0.66 0.883136
Target:  5'- aGCGUGCGCgAGGagaUCCC----CGCGUCc -3'
miRNA:   3'- aCGCACGCG-UCC---AGGGcguuGUGCAG- -5'
1583 5' -58.3 NC_001347.2 + 145636 0.69 0.715199
Target:  5'- cUGCGgGUGUuucccggaGGGUCCgCGCGACACG-Ca -3'
miRNA:   3'- -ACGCaCGCG--------UCCAGG-GCGUUGUGCaG- -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.