miRNA display CGI


Results 1 - 20 of 51 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
23224 3' -59.5 NC_005259.1 + 50913 1.06 0.000665
Target:  5'- gAUAGCGCCGCAUGAGCCGCACCCACAc -3'
miRNA:   3'- -UAUCGCGGCGUACUCGGCGUGGGUGU- -5'
23224 3' -59.5 NC_005259.1 + 5489 0.76 0.110514
Target:  5'- aAUAGCGCCGagcgagGAucgagcuacgcgcGCCGCGCCCGCAa -3'
miRNA:   3'- -UAUCGCGGCgua---CU-------------CGGCGUGGGUGU- -5'
23224 3' -59.5 NC_005259.1 + 62799 0.74 0.162091
Target:  5'- -gAGCGCCGCGucauucaccuUGAagcGCCGCuuGCCCGCGa -3'
miRNA:   3'- uaUCGCGGCGU----------ACU---CGGCG--UGGGUGU- -5'
23224 3' -59.5 NC_005259.1 + 13425 0.73 0.175562
Target:  5'- -gGGuCGCCGCcgGGGCCGCGCUagGCGu -3'
miRNA:   3'- uaUC-GCGGCGuaCUCGGCGUGGg-UGU- -5'
23224 3' -59.5 NC_005259.1 + 46770 0.73 0.185089
Target:  5'- --uGCGCCGac--AGCCGCGCCCGCc -3'
miRNA:   3'- uauCGCGGCguacUCGGCGUGGGUGu -5'
23224 3' -59.5 NC_005259.1 + 23890 0.73 0.190021
Target:  5'- --cGCuGCCGCccGAGCCGCcgcGCCCGCc -3'
miRNA:   3'- uauCG-CGGCGuaCUCGGCG---UGGGUGu -5'
23224 3' -59.5 NC_005259.1 + 31245 0.72 0.200233
Target:  5'- -gGGCGCgGCG-GuGCCGC-CCCACAc -3'
miRNA:   3'- uaUCGCGgCGUaCuCGGCGuGGGUGU- -5'
23224 3' -59.5 NC_005259.1 + 8867 0.72 0.205516
Target:  5'- ---cCGCCGCcu--GCCGCACCCACGc -3'
miRNA:   3'- uaucGCGGCGuacuCGGCGUGGGUGU- -5'
23224 3' -59.5 NC_005259.1 + 25075 0.72 0.222093
Target:  5'- gGUGGCGCUGCcaccgccGCUGCGCCCGCc -3'
miRNA:   3'- -UAUCGCGGCGuacu---CGGCGUGGGUGu -5'
23224 3' -59.5 NC_005259.1 + 56906 0.71 0.233766
Target:  5'- cGUGGcCGCCGCAgcAGgCGUGCCCGCGu -3'
miRNA:   3'- -UAUC-GCGGCGUacUCgGCGUGGGUGU- -5'
23224 3' -59.5 NC_005259.1 + 36717 0.71 0.233766
Target:  5'- --cGUGCCGCucgacccGCCGCGCCCGCc -3'
miRNA:   3'- uauCGCGGCGuacu---CGGCGUGGGUGu -5'
23224 3' -59.5 NC_005259.1 + 6463 0.71 0.245951
Target:  5'- -cAGCGUCGCcgGuGCCcuGUACCCGCu -3'
miRNA:   3'- uaUCGCGGCGuaCuCGG--CGUGGGUGu -5'
23224 3' -59.5 NC_005259.1 + 66052 0.7 0.278717
Target:  5'- cGUAGaCGCCGcCGUGGGCCugcuGUAgCCACAc -3'
miRNA:   3'- -UAUC-GCGGC-GUACUCGG----CGUgGGUGU- -5'
23224 3' -59.5 NC_005259.1 + 11525 0.7 0.292766
Target:  5'- -cGGCGgCaGCGaucuUGAGCCGUugCCGCAc -3'
miRNA:   3'- uaUCGCgG-CGU----ACUCGGCGugGGUGU- -5'
23224 3' -59.5 NC_005259.1 + 63176 0.69 0.346258
Target:  5'- -cAGCGCCGCcgagGUGA-UCGCACCC-CGg -3'
miRNA:   3'- uaUCGCGGCG----UACUcGGCGUGGGuGU- -5'
23224 3' -59.5 NC_005259.1 + 39853 0.69 0.354448
Target:  5'- -aGGaUGCCGgugagcuucuCAUaGAGCUGCGCCCACAc -3'
miRNA:   3'- uaUC-GCGGC----------GUA-CUCGGCGUGGGUGU- -5'
23224 3' -59.5 NC_005259.1 + 47955 0.69 0.354448
Target:  5'- -cGGUGCCG-AUGGccGCCGCgccGCCCGCGa -3'
miRNA:   3'- uaUCGCGGCgUACU--CGGCG---UGGGUGU- -5'
23224 3' -59.5 NC_005259.1 + 49881 0.68 0.361936
Target:  5'- --uGCGCCgaguugcGCAUGAagGUCGUGCCCGCGu -3'
miRNA:   3'- uauCGCGG-------CGUACU--CGGCGUGGGUGU- -5'
23224 3' -59.5 NC_005259.1 + 19869 0.68 0.388556
Target:  5'- --cGCGcCCGCcgGGaucgccgacGCCGCGCCCAa- -3'
miRNA:   3'- uauCGC-GGCGuaCU---------CGGCGUGGGUgu -5'
23224 3' -59.5 NC_005259.1 + 7906 0.68 0.396522
Target:  5'- gAUAGCgcaccaccuuGCCGCccuuggucucGUGGGCCuucuugcGCGCCCACGg -3'
miRNA:   3'- -UAUCG----------CGGCG----------UACUCGG-------CGUGGGUGU- -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.