miRNA display CGI


Results 1 - 20 of 42 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
30416 3' -60 NC_006548.1 + 13550 0.66 0.424422
Target:  5'- uGCUGACCUuccucGGUgccugcgCGGGCGG-CGGCa -3'
miRNA:   3'- cCGGCUGGA-----CCGa------GCUCGCCaGCUGg -5'
30416 3' -60 NC_006548.1 + 27193 0.66 0.424422
Target:  5'- uGCCGAgC-GuGCUCGcguccagcaGGCGG-CGACCg -3'
miRNA:   3'- cCGGCUgGaC-CGAGC---------UCGCCaGCUGG- -5'
30416 3' -60 NC_006548.1 + 20768 0.66 0.424422
Target:  5'- gGGCC-ACCUGuGCUUc-GCGGgUGGCCa -3'
miRNA:   3'- -CCGGcUGGAC-CGAGcuCGCCaGCUGG- -5'
30416 3' -60 NC_006548.1 + 21149 0.66 0.42349
Target:  5'- uGGCCuACUUGGCUCccuugguGAuGUGGguaaCGGCCu -3'
miRNA:   3'- -CCGGcUGGACCGAG-------CU-CGCCa---GCUGG- -5'
30416 3' -60 NC_006548.1 + 36639 0.66 0.415165
Target:  5'- uGCCGGCCgcGGCgUUGAuCGcGUCGACg -3'
miRNA:   3'- cCGGCUGGa-CCG-AGCUcGC-CAGCUGg -5'
30416 3' -60 NC_006548.1 + 38259 0.66 0.415165
Target:  5'- aGCUGACC--GCUCugucuGAGCGGgUGGCCg -3'
miRNA:   3'- cCGGCUGGacCGAG-----CUCGCCaGCUGG- -5'
30416 3' -60 NC_006548.1 + 21715 0.66 0.397028
Target:  5'- cGGCCGACCagGGUUucCGGGaCGGUgaaGCCc -3'
miRNA:   3'- -CCGGCUGGa-CCGA--GCUC-GCCAgc-UGG- -5'
30416 3' -60 NC_006548.1 + 22312 0.66 0.397028
Target:  5'- aGGCCGAaggUGGUgccguugCGGGUG-UCGGCCa -3'
miRNA:   3'- -CCGGCUgg-ACCGa------GCUCGCcAGCUGG- -5'
30416 3' -60 NC_006548.1 + 28958 0.66 0.397028
Target:  5'- cGCCGGCCgc-CUCGA-CGGuUUGGCCg -3'
miRNA:   3'- cCGGCUGGaccGAGCUcGCC-AGCUGG- -5'
30416 3' -60 NC_006548.1 + 17441 0.67 0.379409
Target:  5'- cGCCGugGCCUcGGCcUGGGUGGacucaacuUCGACCc -3'
miRNA:   3'- cCGGC--UGGA-CCGaGCUCGCC--------AGCUGG- -5'
30416 3' -60 NC_006548.1 + 4619 0.67 0.379409
Target:  5'- cGGCCGGgCUGGCaagcaguugucCGAgGUGGUgGACg -3'
miRNA:   3'- -CCGGCUgGACCGa----------GCU-CGCCAgCUGg -5'
30416 3' -60 NC_006548.1 + 23850 0.67 0.379409
Target:  5'- uGGCCGGCg-GGCUUGGGUGagagaGUCuccugGGCCa -3'
miRNA:   3'- -CCGGCUGgaCCGAGCUCGC-----CAG-----CUGG- -5'
30416 3' -60 NC_006548.1 + 19948 0.67 0.362322
Target:  5'- cGGCCGGCggggaggaUUGGCagaGuGGCGGUUGGCUu -3'
miRNA:   3'- -CCGGCUG--------GACCGag-C-UCGCCAGCUGG- -5'
30416 3' -60 NC_006548.1 + 21291 0.67 0.362322
Target:  5'- -uCCGGCCUGGCgccggUCGAGUacGG-CGGCa -3'
miRNA:   3'- ccGGCUGGACCG-----AGCUCG--CCaGCUGg -5'
30416 3' -60 NC_006548.1 + 15802 0.67 0.362322
Target:  5'- -aCCGGCCUGGgUaucggcUGGGCGGaCGACg -3'
miRNA:   3'- ccGGCUGGACCgA------GCUCGCCaGCUGg -5'
30416 3' -60 NC_006548.1 + 24017 0.67 0.361481
Target:  5'- cGCCuGCCaGGC-CGGGCGGUguccagcCGAUCa -3'
miRNA:   3'- cCGGcUGGaCCGaGCUCGCCA-------GCUGG- -5'
30416 3' -60 NC_006548.1 + 7570 0.67 0.345776
Target:  5'- uGGCCGAgCaGGC-CGAGgagcaaGGUgcCGACCa -3'
miRNA:   3'- -CCGGCUgGaCCGaGCUCg-----CCA--GCUGG- -5'
30416 3' -60 NC_006548.1 + 32592 0.67 0.344963
Target:  5'- gGGCUGA--UGGCgugcaggagucacUgGAGUGGUUGACCg -3'
miRNA:   3'- -CCGGCUggACCG-------------AgCUCGCCAGCUGG- -5'
30416 3' -60 NC_006548.1 + 16526 0.67 0.337709
Target:  5'- uGCCGcaGCCUGGUcgaUCGGGCGaUC-ACCg -3'
miRNA:   3'- cCGGC--UGGACCG---AGCUCGCcAGcUGG- -5'
30416 3' -60 NC_006548.1 + 4844 0.68 0.330567
Target:  5'- uGGCUGACCUucaaGGCUCGgugcaauugcgcgaAGCGuGccuccgggcucgauuUCGGCCg -3'
miRNA:   3'- -CCGGCUGGA----CCGAGC--------------UCGC-C---------------AGCUGG- -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.