miRNA display CGI


Results 1 - 20 of 43 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
15677 3' -57.1 NC_004065.1 + 17222 0.68 0.851538
Target:  5'- cGCCAaagcgUCCGAAAGGGC-CUCag-CUGCc -3'
miRNA:   3'- -UGGU-----GGGCUUUCCCGaGAGcgaGACG- -5'
15677 3' -57.1 NC_004065.1 + 19180 0.67 0.900092
Target:  5'- uUCugCCGAGGcGGGacacCUCcggcCGCUCUGCg -3'
miRNA:   3'- uGGugGGCUUU-CCC----GAGa---GCGAGACG- -5'
15677 3' -57.1 NC_004065.1 + 24815 0.66 0.923138
Target:  5'- gACCGcgcgauCCCGAcgAGGGGCUCgucucCGCUgccgucgucgCUGCc -3'
miRNA:   3'- -UGGU------GGGCU--UUCCCGAGa----GCGA----------GACG- -5'
15677 3' -57.1 NC_004065.1 + 25065 1.12 0.002318
Target:  5'- cACCACCCGAAAGGGCUCUCGCUCUGCa -3'
miRNA:   3'- -UGGUGGGCUUUCCCGAGAGCGAGACG- -5'
15677 3' -57.1 NC_004065.1 + 30378 0.66 0.936672
Target:  5'- cGCCACCCGcccuccccAGGccgccggggcugcaGCUCUCGCUaccGCu -3'
miRNA:   3'- -UGGUGGGCuu------UCC--------------CGAGAGCGAga-CG- -5'
15677 3' -57.1 NC_004065.1 + 35657 0.67 0.880516
Target:  5'- uCCACgCGAGGGGggaGCUgUUGCgCUGCg -3'
miRNA:   3'- uGGUGgGCUUUCC---CGAgAGCGaGACG- -5'
15677 3' -57.1 NC_004065.1 + 39832 0.66 0.932832
Target:  5'- gAUCugCCGGAucucuccGGGGUUCUCGCg---- -3'
miRNA:   3'- -UGGugGGCUU-------UCCCGAGAGCGagacg -5'
15677 3' -57.1 NC_004065.1 + 42983 0.66 0.923138
Target:  5'- gGCCGCCgcgcugCGAucacuGGGGCggaggagcgCUCGCcgaccUCUGCa -3'
miRNA:   3'- -UGGUGG------GCUu----UCCCGa--------GAGCG-----AGACG- -5'
15677 3' -57.1 NC_004065.1 + 53060 0.7 0.757808
Target:  5'- uUUugCCGAGGgcGGGCg--CGCUCUGCu -3'
miRNA:   3'- uGGugGGCUUU--CCCGagaGCGAGACG- -5'
15677 3' -57.1 NC_004065.1 + 56113 0.72 0.651526
Target:  5'- gACCGuCCCGGAcgacGGcGGCgCUCGCcuUCUGCa -3'
miRNA:   3'- -UGGU-GGGCUU----UC-CCGaGAGCG--AGACG- -5'
15677 3' -57.1 NC_004065.1 + 57496 0.68 0.859077
Target:  5'- gACCGgcgucUUCGAGGGGGUUUUCGCUgUGa -3'
miRNA:   3'- -UGGU-----GGGCUUUCCCGAGAGCGAgACg -5'
15677 3' -57.1 NC_004065.1 + 58231 0.67 0.89378
Target:  5'- cGCCGCgCaCG-AAGGGCUCcUCGCUgaGg -3'
miRNA:   3'- -UGGUG-G-GCuUUCCCGAG-AGCGAgaCg -5'
15677 3' -57.1 NC_004065.1 + 59412 0.66 0.912059
Target:  5'- cGCgCGCCCGAucGGaCUCUCGCcgUCgucGCc -3'
miRNA:   3'- -UG-GUGGGCUuuCCcGAGAGCG--AGa--CG- -5'
15677 3' -57.1 NC_004065.1 + 61591 0.67 0.887254
Target:  5'- uUCGCCCGGGucgccGcGGCUCUCGCcgUCgagUGCg -3'
miRNA:   3'- uGGUGGGCUUu----C-CCGAGAGCG--AG---ACG- -5'
15677 3' -57.1 NC_004065.1 + 74408 0.67 0.873571
Target:  5'- cGCCGCCUGc-GGGGUUCUCgGCcCggGCa -3'
miRNA:   3'- -UGGUGGGCuuUCCCGAGAG-CGaGa-CG- -5'
15677 3' -57.1 NC_004065.1 + 82755 0.78 0.322176
Target:  5'- gGCCACCgaUGAGGGGG-UCUCGgUCUGCg -3'
miRNA:   3'- -UGGUGG--GCUUUCCCgAGAGCgAGACG- -5'
15677 3' -57.1 NC_004065.1 + 87642 0.71 0.682113
Target:  5'- gGCCGCUCGAucaaccggcggaugcAGGGC-CU-GCUCUGCg -3'
miRNA:   3'- -UGGUGGGCUu--------------UCCCGaGAgCGAGACG- -5'
15677 3' -57.1 NC_004065.1 + 88610 0.66 0.922605
Target:  5'- gGCCGCggaCGAGAGcGGUcccauguacgauuUCUCcGCUCUGUu -3'
miRNA:   3'- -UGGUGg--GCUUUC-CCG-------------AGAG-CGAGACG- -5'
15677 3' -57.1 NC_004065.1 + 91996 0.74 0.543291
Target:  5'- aACCGCCCcGAAGGGCUC-CGUgcgCcGCa -3'
miRNA:   3'- -UGGUGGGcUUUCCCGAGaGCGa--GaCG- -5'
15677 3' -57.1 NC_004065.1 + 94061 0.68 0.851538
Target:  5'- cCCGCUCGAcgcuccGCUUUUGCUCUGCc -3'
miRNA:   3'- uGGUGGGCUuucc--CGAGAGCGAGACG- -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.