miRNA display CGI


Results 1 - 20 of 28 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
18501 3' -64.5 NC_004681.1 + 56758 1.05 0.00037
Target:  5'- cUACGACGUGCCGCGGGGCGAGGCCCAc -3'
miRNA:   3'- -AUGCUGCACGGCGCCCCGCUCCGGGU- -5'
18501 3' -64.5 NC_004681.1 + 51104 0.71 0.154926
Target:  5'- gACGACGgccucCCGUGGGGUGAagcagugaaGGCCCu -3'
miRNA:   3'- aUGCUGCac---GGCGCCCCGCU---------CCGGGu -5'
18501 3' -64.5 NC_004681.1 + 6381 0.68 0.259983
Target:  5'- gAUGGCGcUGUCGagGGGGagGAGGCCCc -3'
miRNA:   3'- aUGCUGC-ACGGCg-CCCCg-CUCCGGGu -5'
18501 3' -64.5 NC_004681.1 + 38226 0.67 0.306133
Target:  5'- --aGACGUcCCGCGGcGGCGccauAGGCaCCGu -3'
miRNA:   3'- augCUGCAcGGCGCC-CCGC----UCCG-GGU- -5'
18501 3' -64.5 NC_004681.1 + 24839 0.66 0.320422
Target:  5'- -uCGGCGUcgGCgGCGcGGGCGGcGGCCg- -3'
miRNA:   3'- auGCUGCA--CGgCGC-CCCGCU-CCGGgu -5'
18501 3' -64.5 NC_004681.1 + 18392 0.66 0.342783
Target:  5'- gGCGGCG-GCCGCGGcGGCaaacGCCUu -3'
miRNA:   3'- aUGCUGCaCGGCGCC-CCGcuc-CGGGu -5'
18501 3' -64.5 NC_004681.1 + 18073 0.69 0.204085
Target:  5'- aGCGGgaGUgGCCGCauGGGcuGCGGGGCCCAc -3'
miRNA:   3'- aUGCUg-CA-CGGCG--CCC--CGCUCCGGGU- -5'
18501 3' -64.5 NC_004681.1 + 61727 0.69 0.20917
Target:  5'- gGCGAUG-GUCGCcucuuccaGGGCGGGGCUCAu -3'
miRNA:   3'- aUGCUGCaCGGCGc-------CCCGCUCCGGGU- -5'
18501 3' -64.5 NC_004681.1 + 8746 0.69 0.20917
Target:  5'- -gUGACGgGCCGCGaGGaaaucagguccGCGAGGCUCAg -3'
miRNA:   3'- auGCUGCaCGGCGC-CC-----------CGCUCCGGGU- -5'
18501 3' -64.5 NC_004681.1 + 30945 0.69 0.214363
Target:  5'- gGCGGCGUGCCGUccuccacgauggGuccGGGCagguAGGCCCAg -3'
miRNA:   3'- aUGCUGCACGGCG------------C---CCCGc---UCCGGGU- -5'
18501 3' -64.5 NC_004681.1 + 28600 0.69 0.225081
Target:  5'- cGCgGGgGUGCC-CGGGGUGAGugugaGCCCAg -3'
miRNA:   3'- aUG-CUgCACGGcGCCCCGCUC-----CGGGU- -5'
18501 3' -64.5 NC_004681.1 + 48691 0.68 0.236251
Target:  5'- gGCgGAUGccUGCCucuGCGaGGGCGuGGCCCAc -3'
miRNA:   3'- aUG-CUGC--ACGG---CGC-CCCGCuCCGGGU- -5'
18501 3' -64.5 NC_004681.1 + 54397 0.7 0.184809
Target:  5'- gACgGAUGUGCCGCucuugagguGGGCGAGGaCCAg -3'
miRNA:   3'- aUG-CUGCACGGCGc--------CCCGCUCCgGGU- -5'
18501 3' -64.5 NC_004681.1 + 39879 0.71 0.167157
Target:  5'- gGCGAUG-GUCGCGcggcGGGCGAGGUCUu -3'
miRNA:   3'- aUGCUGCaCGGCGC----CCCGCUCCGGGu -5'
18501 3' -64.5 NC_004681.1 + 17721 0.71 0.167157
Target:  5'- gUGCGACGUGaaCGCGGGGuCGuccGcGCCCGa -3'
miRNA:   3'- -AUGCUGCACg-GCGCCCC-GCu--C-CGGGU- -5'
18501 3' -64.5 NC_004681.1 + 10761 0.72 0.132869
Target:  5'- cGCGACG-GCCGCGGGcaccgGGGGCgCCAg -3'
miRNA:   3'- aUGCUGCaCGGCGCCCcg---CUCCG-GGU- -5'
18501 3' -64.5 NC_004681.1 + 18138 0.73 0.113739
Target:  5'- cGCGGCGcUGCCGUGaGGCGuuGCCCGa -3'
miRNA:   3'- aUGCUGC-ACGGCGCcCCGCucCGGGU- -5'
18501 3' -64.5 NC_004681.1 + 37766 0.76 0.068864
Target:  5'- aGCGACGcgcgGCCGCu-GGCGAGGCCCc -3'
miRNA:   3'- aUGCUGCa---CGGCGccCCGCUCCGGGu -5'
18501 3' -64.5 NC_004681.1 + 46717 0.76 0.067048
Target:  5'- --gGGCGUG-UGCGGGGCGGGGUCCu -3'
miRNA:   3'- augCUGCACgGCGCCCCGCUCCGGGu -5'
18501 3' -64.5 NC_004681.1 + 67355 0.66 0.335206
Target:  5'- -uCGGCGuUGCgGUGcGGCGGGGCCa- -3'
miRNA:   3'- auGCUGC-ACGgCGCcCCGCUCCGGgu -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.