miRNA display CGI


Results 1 - 18 of 18 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
14696 3' -53.2 NC_003529.1 + 54469 0.66 0.970419
Target:  5'- uGCGCGAUCuGAGCagcaAUGUuCACGuUCu -3'
miRNA:   3'- uUGCGCUAG-CUCGg---UGCAuGUGCuAG- -5'
14696 3' -53.2 NC_003529.1 + 101584 0.66 0.970419
Target:  5'- gAACGCGccGUCG-GCCACG-ACAaGAUUg -3'
miRNA:   3'- -UUGCGC--UAGCuCGGUGCaUGUgCUAG- -5'
14696 3' -53.2 NC_003529.1 + 62828 0.67 0.948197
Target:  5'- cGACGCGAUCGAuuccauuGUUGCGUuuGCGcAUCa -3'
miRNA:   3'- -UUGCGCUAGCU-------CGGUGCAugUGC-UAG- -5'
14696 3' -53.2 NC_003529.1 + 70380 0.68 0.934528
Target:  5'- uGACGCGAgCGGGuUCGCGUGCucucaGGUCc -3'
miRNA:   3'- -UUGCGCUaGCUC-GGUGCAUGug---CUAG- -5'
14696 3' -53.2 NC_003529.1 + 70667 0.68 0.929332
Target:  5'- -uUGUac-CGGGCCGCGgACACGAUCa -3'
miRNA:   3'- uuGCGcuaGCUCGGUGCaUGUGCUAG- -5'
14696 3' -53.2 NC_003529.1 + 101747 0.68 0.929332
Target:  5'- cGGCGCGuucgauguGUCGGGCCGgGaaaACGAUCa -3'
miRNA:   3'- -UUGCGC--------UAGCUCGGUgCaugUGCUAG- -5'
14696 3' -53.2 NC_003529.1 + 21336 0.68 0.923886
Target:  5'- cGGCGCGAgaugCGAGCCGucCGUGucggcCACGAc- -3'
miRNA:   3'- -UUGCGCUa---GCUCGGU--GCAU-----GUGCUag -5'
14696 3' -53.2 NC_003529.1 + 116025 0.68 0.923886
Target:  5'- cGCGCGAUCGAuucugccaGUCGCGUGC-CGuggCa -3'
miRNA:   3'- uUGCGCUAGCU--------CGGUGCAUGuGCua-G- -5'
14696 3' -53.2 NC_003529.1 + 46180 0.68 0.918191
Target:  5'- cGACGC-AUCGGGaCCAaGUGCGCGAc- -3'
miRNA:   3'- -UUGCGcUAGCUC-GGUgCAUGUGCUag -5'
14696 3' -53.2 NC_003529.1 + 106952 0.69 0.89962
Target:  5'- cAACGCaucGUCGAGUauaACGUGCAgGAUUg -3'
miRNA:   3'- -UUGCGc--UAGCUCGg--UGCAUGUgCUAG- -5'
14696 3' -53.2 NC_003529.1 + 149715 0.69 0.878876
Target:  5'- uGCGaCGAUaucgCGAGCCGC-UugACGAUCu -3'
miRNA:   3'- uUGC-GCUA----GCUCGGUGcAugUGCUAG- -5'
14696 3' -53.2 NC_003529.1 + 49465 0.69 0.874476
Target:  5'- uACGCGAUCGucAGCCGCGguaucgugucgagaACACG-UCa -3'
miRNA:   3'- uUGCGCUAGC--UCGGUGCa-------------UGUGCuAG- -5'
14696 3' -53.2 NC_003529.1 + 100463 0.72 0.76752
Target:  5'- cAGCgGCGAUCGcgacGGUCGCGUACACGuguuugGUCa -3'
miRNA:   3'- -UUG-CGCUAGC----UCGGUGCAUGUGC------UAG- -5'
14696 3' -53.2 NC_003529.1 + 128010 0.72 0.738084
Target:  5'- cGCGCGAaacugccugUCGAGCCAUGUACcaaaaAUGAUa -3'
miRNA:   3'- uUGCGCU---------AGCUCGGUGCAUG-----UGCUAg -5'
14696 3' -53.2 NC_003529.1 + 102669 0.73 0.717961
Target:  5'- uGCGC-AUUGAuGCCACGUACACuAUCg -3'
miRNA:   3'- uUGCGcUAGCU-CGGUGCAUGUGcUAG- -5'
14696 3' -53.2 NC_003529.1 + 88003 0.74 0.635174
Target:  5'- aAACuCGAUUGuGCCAUGUGuCGCGAUCa -3'
miRNA:   3'- -UUGcGCUAGCuCGGUGCAU-GUGCUAG- -5'
14696 3' -53.2 NC_003529.1 + 45251 0.74 0.624721
Target:  5'- aAACGCcauucuguaGGUCGAGgCGCGUGCGCGAc- -3'
miRNA:   3'- -UUGCG---------CUAGCUCgGUGCAUGUGCUag -5'
14696 3' -53.2 NC_003529.1 + 20923 1.07 0.007362
Target:  5'- gAACGCGAUCGAGCCACGUACACGAUCc -3'
miRNA:   3'- -UUGCGCUAGCUCGGUGCAUGUGCUAG- -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.