miRNA display CGI


Results 1 - 20 of 30 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
13284 3' -62.7 NC_003409.1 + 131700 0.66 0.60758
Target:  5'- uGCGGgcGGC---CAGGGaCUACCGCUGc -3'
miRNA:   3'- -UGCCaaCCGugcGUCCC-GGUGGCGGC- -5'
13284 3' -62.7 NC_003409.1 + 70536 0.66 0.607579
Target:  5'- cUGGUggGGCGCgGCAGcugacucaaaaaGGUCACUGCCu -3'
miRNA:   3'- uGCCAa-CCGUG-CGUC------------CCGGUGGCGGc -5'
13284 3' -62.7 NC_003409.1 + 101078 0.66 0.587923
Target:  5'- cACGGUUGGCuCGCugcauGaGGCCuugcggcaGgCGCCGu -3'
miRNA:   3'- -UGCCAACCGuGCGu----C-CCGG--------UgGCGGC- -5'
13284 3' -62.7 NC_003409.1 + 13026 0.66 0.587922
Target:  5'- cGCGGUUaGCGgGUaucagGGGGCCACUGUa- -3'
miRNA:   3'- -UGCCAAcCGUgCG-----UCCCGGUGGCGgc -5'
13284 3' -62.7 NC_003409.1 + 96441 0.66 0.578136
Target:  5'- -gGGgaGGCAUGCgauacgGGGGCCcaACCGCa- -3'
miRNA:   3'- ugCCaaCCGUGCG------UCCCGG--UGGCGgc -5'
13284 3' -62.7 NC_003409.1 + 133599 0.66 0.568384
Target:  5'- aACGccuGUcUGGCACaguucCAGGGCCACCGUUc -3'
miRNA:   3'- -UGC---CA-ACCGUGc----GUCCCGGUGGCGGc -5'
13284 3' -62.7 NC_003409.1 + 105054 0.66 0.562554
Target:  5'- cGCGGUgaugugugggGGCugGUgcucgucugguggcuGGuGGCCACCGCg- -3'
miRNA:   3'- -UGCCAa---------CCGugCG---------------UC-CCGGUGGCGgc -5'
13284 3' -62.7 NC_003409.1 + 70783 0.66 0.558675
Target:  5'- gACGGUUGGaguCAUGCAuGGCCAgUGUCc -3'
miRNA:   3'- -UGCCAACC---GUGCGUcCCGGUgGCGGc -5'
13284 3' -62.7 NC_003409.1 + 107809 0.66 0.558675
Target:  5'- cACGGUgGGCACGCcccuGGaGCUcCCuGCCa -3'
miRNA:   3'- -UGCCAaCCGUGCGu---CC-CGGuGG-CGGc -5'
13284 3' -62.7 NC_003409.1 + 128046 0.66 0.547087
Target:  5'- cGCGGUUGGgggugccCGCGUucaGGGGCCcaugcggggcucuGCUGCCc -3'
miRNA:   3'- -UGCCAACC-------GUGCG---UCCCGG-------------UGGCGGc -5'
13284 3' -62.7 NC_003409.1 + 33987 0.67 0.539404
Target:  5'- -gGGUacgGGCGCGcCAGGGaCAgCGCCc -3'
miRNA:   3'- ugCCAa--CCGUGC-GUCCCgGUgGCGGc -5'
13284 3' -62.7 NC_003409.1 + 51487 0.67 0.529852
Target:  5'- cCGGUUcagccGGuCGC-CAGGGUCAucCCGCCGg -3'
miRNA:   3'- uGCCAA-----CC-GUGcGUCCCGGU--GGCGGC- -5'
13284 3' -62.7 NC_003409.1 + 97993 0.67 0.509066
Target:  5'- gACGGcucuucagugccUGGCAgaucCAGGGUCACCGCCu -3'
miRNA:   3'- -UGCCa-----------ACCGUgc--GUCCCGGUGGCGGc -5'
13284 3' -62.7 NC_003409.1 + 16791 0.67 0.498801
Target:  5'- cUGGc-GGcCGCGCGGGGCCAgcguaauuuuugguCCGCUGu -3'
miRNA:   3'- uGCCaaCC-GUGCGUCCCGGU--------------GGCGGC- -5'
13284 3' -62.7 NC_003409.1 + 133203 0.68 0.483123
Target:  5'- cCGGUggugaGGCACcuGCAGGcGCUGgCGCCGc -3'
miRNA:   3'- uGCCAa----CCGUG--CGUCC-CGGUgGCGGC- -5'
13284 3' -62.7 NC_003409.1 + 87346 0.68 0.474012
Target:  5'- -aGGgUGGCGCGUc-GGCCAcgcccuCCGCCGg -3'
miRNA:   3'- ugCCaACCGUGCGucCCGGU------GGCGGC- -5'
13284 3' -62.7 NC_003409.1 + 121978 0.68 0.464988
Target:  5'- cGCGGUUGuuUACGCAGGGUgcggUGCUGCCc -3'
miRNA:   3'- -UGCCAACc-GUGCGUCCCG----GUGGCGGc -5'
13284 3' -62.7 NC_003409.1 + 130623 0.68 0.441956
Target:  5'- -gGGUuucugggauagugucUGGCugGCAGGGUCucauCCGCgGc -3'
miRNA:   3'- ugCCA---------------ACCGugCGUCCCGGu---GGCGgC- -5'
13284 3' -62.7 NC_003409.1 + 55449 0.69 0.42128
Target:  5'- aGCGaaUGGCGgGCGGcaaGCCGCCGCCc -3'
miRNA:   3'- -UGCcaACCGUgCGUCc--CGGUGGCGGc -5'
13284 3' -62.7 NC_003409.1 + 67802 0.7 0.380142
Target:  5'- cGCGGUgggugcGGCGCGCAGGG--GgCGCCa -3'
miRNA:   3'- -UGCCAa-----CCGUGCGUCCCggUgGCGGc -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.