miRNA display CGI


Results 1 - 20 of 22 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
7172 3' -57.1 NC_001900.1 + 2232 0.73 0.225097
Target:  5'- gGGCCuGGAGAUCCUugaguacucgggUGACGGCCagGUCGa -3'
miRNA:   3'- -UCGG-CCUUUGGGA------------GCUGUCGGa-CAGC- -5'
7172 3' -57.1 NC_001900.1 + 3802 0.66 0.578618
Target:  5'- cGGUCGGcgugaCCUCGACGGCg-GUCa -3'
miRNA:   3'- -UCGGCCuuug-GGAGCUGUCGgaCAGc -5'
7172 3' -57.1 NC_001900.1 + 4012 0.66 0.589478
Target:  5'- uGCCGagacacGAAGCCgaUGuauCGGCCUGUCGc -3'
miRNA:   3'- uCGGC------CUUUGGgaGCu--GUCGGACAGC- -5'
7172 3' -57.1 NC_001900.1 + 8127 0.66 0.589478
Target:  5'- aGGUCGaGGGCUCUCG-CAcCCUGUCGa -3'
miRNA:   3'- -UCGGCcUUUGGGAGCuGUcGGACAGC- -5'
7172 3' -57.1 NC_001900.1 + 8645 0.69 0.434292
Target:  5'- uGCCGGGu-CUC-CGACGGCCUGcuguUCGu -3'
miRNA:   3'- uCGGCCUuuGGGaGCUGUCGGAC----AGC- -5'
7172 3' -57.1 NC_001900.1 + 11794 0.66 0.600375
Target:  5'- cGCUGcGGGCCgUguaCGACGGCcCUGUCGg -3'
miRNA:   3'- uCGGCcUUUGGgA---GCUGUCG-GACAGC- -5'
7172 3' -57.1 NC_001900.1 + 12286 0.67 0.525123
Target:  5'- cGUCGGAGGCCgauucucggUCGACGGCCacGUCu -3'
miRNA:   3'- uCGGCCUUUGGg--------AGCUGUCGGa-CAGc -5'
7172 3' -57.1 NC_001900.1 + 12828 0.67 0.546329
Target:  5'- cAGCUcaucuGggGCCagaUCGGCGGUCUGUCc -3'
miRNA:   3'- -UCGGc----CuuUGGg--AGCUGUCGGACAGc -5'
7172 3' -57.1 NC_001900.1 + 14588 0.66 0.557035
Target:  5'- -uCCGaGaAGACCCUCGACucGCCgggGUCa -3'
miRNA:   3'- ucGGC-C-UUUGGGAGCUGu-CGGa--CAGc -5'
7172 3' -57.1 NC_001900.1 + 14605 0.7 0.379045
Target:  5'- gAGCCGGGGAUgUggGacaGCAGCCUGUCc -3'
miRNA:   3'- -UCGGCCUUUGgGagC---UGUCGGACAGc -5'
7172 3' -57.1 NC_001900.1 + 15556 0.67 0.503202
Target:  5'- cGCCGGGcgguggagccuGACCCaaacUUGACAGCCaccaggcUGUCu -3'
miRNA:   3'- uCGGCCU-----------UUGGG----AGCUGUCGG-------ACAGc -5'
7172 3' -57.1 NC_001900.1 + 23462 0.69 0.403321
Target:  5'- gGGCCGGAAGCUCUCcugguGaccaccacgcggggGCAGCggCUGUCGa -3'
miRNA:   3'- -UCGGCCUUUGGGAG-----C--------------UGUCG--GACAGC- -5'
7172 3' -57.1 NC_001900.1 + 25241 0.71 0.293586
Target:  5'- cGCCGGAAGCCagcgcCGAUAGCCgaccggagcccgucGUCGg -3'
miRNA:   3'- uCGGCCUUUGGga---GCUGUCGGa-------------CAGC- -5'
7172 3' -57.1 NC_001900.1 + 26891 0.75 0.167903
Target:  5'- cGGCCGGAAccgucGCCgUCGGCGGUCUGg-- -3'
miRNA:   3'- -UCGGCCUU-----UGGgAGCUGUCGGACagc -5'
7172 3' -57.1 NC_001900.1 + 30026 0.67 0.501134
Target:  5'- cGCCGGGAugCCagugaUCGACAugcgcgagguccgcGCCUGcagCGg -3'
miRNA:   3'- uCGGCCUUugGG-----AGCUGU--------------CGGACa--GC- -5'
7172 3' -57.1 NC_001900.1 + 34072 0.66 0.589478
Target:  5'- uGGCUG--AACuCCUCGGCcGCuCUGUCGa -3'
miRNA:   3'- -UCGGCcuUUG-GGAGCUGuCG-GACAGC- -5'
7172 3' -57.1 NC_001900.1 + 37530 0.71 0.305461
Target:  5'- cGGCCGGAGuGCCUUCGGUAGUUgcggUGUCGg -3'
miRNA:   3'- -UCGGCCUU-UGGGAGCUGUCGG----ACAGC- -5'
7172 3' -57.1 NC_001900.1 + 38060 0.66 0.5678
Target:  5'- gAGCUGGGucgUUCUUGACAGCgccgaugauCUGUCGg -3'
miRNA:   3'- -UCGGCCUuu-GGGAGCUGUCG---------GACAGC- -5'
7172 3' -57.1 NC_001900.1 + 38475 0.67 0.514637
Target:  5'- cAGgCGGAAucACCCccuUCGAUGGCCgGUUGu -3'
miRNA:   3'- -UCgGCCUU--UGGG---AGCUGUCGGaCAGC- -5'
7172 3' -57.1 NC_001900.1 + 39679 1.08 0.000703
Target:  5'- gAGCCGGAAACCCUCGACAGCCUGUCGc -3'
miRNA:   3'- -UCGGCCUUUGGGAGCUGUCGGACAGC- -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.