miRNA display CGI


Results 21 - 39 of 39 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
12946 5' -59.9 NC_003387.1 + 24821 0.67 0.371198
Target:  5'- aGCAGCUCG-GCGUacUCGGgCGgCUGGc -3'
miRNA:   3'- -CGUCGAGCaCGCGc-AGCC-GUgGACCa -5'
12946 5' -59.9 NC_003387.1 + 35804 0.67 0.366957
Target:  5'- aGCGGCgccccauguugUCGgccggguacugcaGCGCGUCGGCuaugucgugcaucGCCUGGg -3'
miRNA:   3'- -CGUCG-----------AGCa------------CGCGCAGCCG-------------UGGACCa -5'
12946 5' -59.9 NC_003387.1 + 23960 0.68 0.346259
Target:  5'- uGCAGCaCGUGCGCagcgccgGGCGgCUGGUu -3'
miRNA:   3'- -CGUCGaGCACGCGcag----CCGUgGACCA- -5'
12946 5' -59.9 NC_003387.1 + 8394 0.68 0.346259
Target:  5'- cCAGUUgCGUGCgGUGUCGGgGCCUcgccGGUg -3'
miRNA:   3'- cGUCGA-GCACG-CGCAGCCgUGGA----CCA- -5'
12946 5' -59.9 NC_003387.1 + 39393 0.68 0.330312
Target:  5'- aGguGCUCGUGCGCc-UGGCGCgCgagugGGUc -3'
miRNA:   3'- -CguCGAGCACGCGcaGCCGUG-Ga----CCA- -5'
12946 5' -59.9 NC_003387.1 + 34722 0.69 0.314913
Target:  5'- gGguGCUUGUGCGCGaaacucgaCGGCACCc--- -3'
miRNA:   3'- -CguCGAGCACGCGCa-------GCCGUGGacca -5'
12946 5' -59.9 NC_003387.1 + 48834 0.69 0.306677
Target:  5'- uGCuGCUCG-GCGCGacgcaCGGCGugcacgcCCUGGUg -3'
miRNA:   3'- -CGuCGAGCaCGCGCa----GCCGU-------GGACCA- -5'
12946 5' -59.9 NC_003387.1 + 45056 0.69 0.300063
Target:  5'- aGCAGgUCGccgaGCGCGUCgagGGCcguCCUGGg -3'
miRNA:   3'- -CGUCgAGCa---CGCGCAG---CCGu--GGACCa -5'
12946 5' -59.9 NC_003387.1 + 31342 0.69 0.292843
Target:  5'- -aGGCUCuuggcgGUGuCGuCGUCuGGCACCUGGg -3'
miRNA:   3'- cgUCGAG------CAC-GC-GCAG-CCGUGGACCa -5'
12946 5' -59.9 NC_003387.1 + 12929 0.69 0.292128
Target:  5'- gGUGGCUCGUcgGCGCucggcagugccacGUCGGCGUCUGGc -3'
miRNA:   3'- -CGUCGAGCA--CGCG-------------CAGCCGUGGACCa -5'
12946 5' -59.9 NC_003387.1 + 32608 0.7 0.271999
Target:  5'- cGguGUUgGUGC-CGUCGGUguACCUGGc -3'
miRNA:   3'- -CguCGAgCACGcGCAGCCG--UGGACCa -5'
12946 5' -59.9 NC_003387.1 + 45243 0.7 0.271999
Target:  5'- gGguGCggGUGCGCGgcUCGGUgaucGCCUGGc -3'
miRNA:   3'- -CguCGagCACGCGC--AGCCG----UGGACCa -5'
12946 5' -59.9 NC_003387.1 + 8843 0.7 0.271999
Target:  5'- aGCGGCUcacCGUGCGCGaUGGCccacgcgauauaGCaCUGGUg -3'
miRNA:   3'- -CGUCGA---GCACGCGCaGCCG------------UG-GACCA- -5'
12946 5' -59.9 NC_003387.1 + 11761 0.7 0.265321
Target:  5'- uCAGCUCGgccucgauCGCGUCGcGCACCUuGGc -3'
miRNA:   3'- cGUCGAGCac------GCGCAGC-CGUGGA-CCa -5'
12946 5' -59.9 NC_003387.1 + 22675 0.7 0.264661
Target:  5'- gGCGcGCUCGUGgGCGgugucgacggCGGCgcuggcgGCCUGGg -3'
miRNA:   3'- -CGU-CGAGCACgCGCa---------GCCG-------UGGACCa -5'
12946 5' -59.9 NC_003387.1 + 21169 0.72 0.200408
Target:  5'- cGCAGCUCGUGuCGCGg-GGCugUcaUGGc -3'
miRNA:   3'- -CGUCGAGCAC-GCGCagCCGugG--ACCa -5'
12946 5' -59.9 NC_003387.1 + 15934 0.74 0.138116
Target:  5'- cGCGGUggCGUGCGCGUCGGCcagcGCCg--- -3'
miRNA:   3'- -CGUCGa-GCACGCGCAGCCG----UGGacca -5'
12946 5' -59.9 NC_003387.1 + 8282 0.75 0.120545
Target:  5'- cGCAGCgccUCGUGCGCGUCGGCg---GGc -3'
miRNA:   3'- -CGUCG---AGCACGCGCAGCCGuggaCCa -5'
12946 5' -59.9 NC_003387.1 + 30858 1.09 0.000314
Target:  5'- aGCAGCUCGUGCGCGUCGGCACCUGGUg -3'
miRNA:   3'- -CGUCGAGCACGCGCAGCCGUGGACCA- -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.