miRNA display CGI


Results 1 - 20 of 33 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
7002 3' -59.8 NC_001875.2 + 104017 1.05 0.001872
Target:  5'- uACCCCUACGAGACCGCCAACGGCCAAu -3'
miRNA:   3'- -UGGGGAUGCUCUGGCGGUUGCCGGUU- -5'
7002 3' -59.8 NC_001875.2 + 94222 0.74 0.256011
Target:  5'- aGCCCCaugucgucgGCGAGcacGCCGCCGuGCGGCCGg -3'
miRNA:   3'- -UGGGGa--------UGCUC---UGGCGGU-UGCCGGUu -5'
7002 3' -59.8 NC_001875.2 + 89665 0.72 0.337007
Target:  5'- cGCCCaaccgcgcgucguUUACGuuuGACCGCgCGACGGCCGAc -3'
miRNA:   3'- -UGGG-------------GAUGCu--CUGGCG-GUUGCCGGUU- -5'
7002 3' -59.8 NC_001875.2 + 55711 0.72 0.368931
Target:  5'- gGCCUCUACG--GCCGCgCAaauACGGCCGAg -3'
miRNA:   3'- -UGGGGAUGCucUGGCG-GU---UGCCGGUU- -5'
7002 3' -59.8 NC_001875.2 + 110083 0.71 0.377026
Target:  5'- -aCgCUGCgcgugGAGGCCGCCAcgcGCGGCCAGa -3'
miRNA:   3'- ugGgGAUG-----CUCUGGCGGU---UGCCGGUU- -5'
7002 3' -59.8 NC_001875.2 + 98285 0.71 0.39357
Target:  5'- uGCCCC-GCGGcGACCGCaCugUGGCCAAc -3'
miRNA:   3'- -UGGGGaUGCU-CUGGCG-GuuGCCGGUU- -5'
7002 3' -59.8 NC_001875.2 + 67685 0.7 0.445923
Target:  5'- aGCUCCUugGAcugacGACaugGCCGGCGGCCu- -3'
miRNA:   3'- -UGGGGAugCU-----CUGg--CGGUUGCCGGuu -5'
7002 3' -59.8 NC_001875.2 + 86930 0.69 0.501939
Target:  5'- cGCCgCCUagagugcgaggGCGAG-CCGCCAGCGuCCAAg -3'
miRNA:   3'- -UGG-GGA-----------UGCUCuGGCGGUUGCcGGUU- -5'
7002 3' -59.8 NC_001875.2 + 102571 0.69 0.501939
Target:  5'- cGCCCCgcCGGcGCgGUCGGCGGCCGc -3'
miRNA:   3'- -UGGGGauGCUcUGgCGGUUGCCGGUu -5'
7002 3' -59.8 NC_001875.2 + 90690 0.69 0.501939
Target:  5'- gACCUCgacgAUGGGGuuGCCGgcGCGGCCGc -3'
miRNA:   3'- -UGGGGa---UGCUCUggCGGU--UGCCGGUu -5'
7002 3' -59.8 NC_001875.2 + 49134 0.69 0.531086
Target:  5'- uGCCCCUGCGcGACUGgCGGCGcuaCCAGg -3'
miRNA:   3'- -UGGGGAUGCuCUGGCgGUUGCc--GGUU- -5'
7002 3' -59.8 NC_001875.2 + 98030 0.69 0.531086
Target:  5'- uCCCCcGCGcgccGugCGCCGACGGgCAAg -3'
miRNA:   3'- uGGGGaUGCu---CugGCGGUUGCCgGUU- -5'
7002 3' -59.8 NC_001875.2 + 101889 0.68 0.539952
Target:  5'- cGCCCCUcucuuuguuaaaaACGuAGGCCGCUuuAGCGGCg-- -3'
miRNA:   3'- -UGGGGA-------------UGC-UCUGGCGG--UUGCCGguu -5'
7002 3' -59.8 NC_001875.2 + 122010 0.68 0.550855
Target:  5'- uGCCCCUACGGccucgcccGuuuuuuauagcaGCCGCCGAUGGCg-- -3'
miRNA:   3'- -UGGGGAUGCU--------C------------UGGCGGUUGCCGguu -5'
7002 3' -59.8 NC_001875.2 + 68394 0.68 0.560824
Target:  5'- cGCCUC-GCGGcuGGCCGCCGAC-GCCGAa -3'
miRNA:   3'- -UGGGGaUGCU--CUGGCGGUUGcCGGUU- -5'
7002 3' -59.8 NC_001875.2 + 78378 0.68 0.570843
Target:  5'- gGCUCCUGCGGGuACUGCU--UGGUCAAa -3'
miRNA:   3'- -UGGGGAUGCUC-UGGCGGuuGCCGGUU- -5'
7002 3' -59.8 NC_001875.2 + 108651 0.68 0.580904
Target:  5'- aGCUaCUGCa--ACCGCCAACGGCCGu -3'
miRNA:   3'- -UGGgGAUGcucUGGCGGUUGCCGGUu -5'
7002 3' -59.8 NC_001875.2 + 101578 0.68 0.580904
Target:  5'- aACCCgUuggcCGGGACUGUCGACcuGGCCAGc -3'
miRNA:   3'- -UGGGgAu---GCUCUGGCGGUUG--CCGGUU- -5'
7002 3' -59.8 NC_001875.2 + 96924 0.67 0.611278
Target:  5'- aGCCCUguuguUugGcGACCG-CGGCGGCCAc -3'
miRNA:   3'- -UGGGG-----AugCuCUGGCgGUUGCCGGUu -5'
7002 3' -59.8 NC_001875.2 + 108079 0.67 0.621443
Target:  5'- uGCgCUCUGCGGGcugcACCGCacucACGGCCAu -3'
miRNA:   3'- -UG-GGGAUGCUC----UGGCGgu--UGCCGGUu -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.