miRNA display CGI


Results 1 - 20 of 29 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
6656 3' -61.4 NC_001847.1 + 109015 0.66 0.680277
Target:  5'- aCCCcCUCCCCAUuGGGA-CUCCcCGc -3'
miRNA:   3'- cGGGaGGGGGGUGuCCCUaGAGGaGC- -5'
6656 3' -61.4 NC_001847.1 + 6202 0.66 0.680277
Target:  5'- aCCCcCUCCCCAUuGGGA-CUCCcCGc -3'
miRNA:   3'- cGGGaGGGGGGUGuCCCUaGAGGaGC- -5'
6656 3' -61.4 NC_001847.1 + 6108 0.66 0.680277
Target:  5'- aCCCcCUCCCCAUuGGGA-CUCCcCGc -3'
miRNA:   3'- cGGGaGGGGGGUGuCCCUaGAGGaGC- -5'
6656 3' -61.4 NC_001847.1 + 108921 0.66 0.680277
Target:  5'- aCCCcCUCCCCAUuGGGA-CUCCcCGc -3'
miRNA:   3'- cGGGaGGGGGGUGuCCCUaGAGGaGC- -5'
6656 3' -61.4 NC_001847.1 + 92530 0.66 0.67046
Target:  5'- cGCCC-CCCUCCGCGGcGGcgccgucccuGUCaccacccccgUCCUCGu -3'
miRNA:   3'- -CGGGaGGGGGGUGUC-CC----------UAG----------AGGAGC- -5'
6656 3' -61.4 NC_001847.1 + 10635 0.66 0.67046
Target:  5'- gGUCCUCCggcuCCUCGCcGGG--CUCCUCGc -3'
miRNA:   3'- -CGGGAGG----GGGGUGuCCCuaGAGGAGC- -5'
6656 3' -61.4 NC_001847.1 + 113448 0.66 0.67046
Target:  5'- gGUCCUCCggcuCCUCGCcGGG--CUCCUCGc -3'
miRNA:   3'- -CGGGAGG----GGGGUGuCCCuaGAGGAGC- -5'
6656 3' -61.4 NC_001847.1 + 11269 0.66 0.630977
Target:  5'- gGCCC-CgCCCCAgggccucagggcCGGGGGUCUcggggCCUCa -3'
miRNA:   3'- -CGGGaGgGGGGU------------GUCCCUAGA-----GGAGc -5'
6656 3' -61.4 NC_001847.1 + 127026 0.66 0.62801
Target:  5'- cGCCCgCCCCgcgguuguacggggCCACGuGGGUCggcgCCUCGc -3'
miRNA:   3'- -CGGGaGGGG--------------GGUGUcCCUAGa---GGAGC- -5'
6656 3' -61.4 NC_001847.1 + 24213 0.66 0.62801
Target:  5'- cGCCCgCCCCgcgguuguacggggCCACGuGGGUCggcgCCUCGc -3'
miRNA:   3'- -CGGGaGGGG--------------GGUGUcCCUAGa---GGAGC- -5'
6656 3' -61.4 NC_001847.1 + 92141 0.67 0.62109
Target:  5'- gGCCCggcgcgCCCCCC-CGGcGGcgUUCC-CGg -3'
miRNA:   3'- -CGGGa-----GGGGGGuGUC-CCuaGAGGaGC- -5'
6656 3' -61.4 NC_001847.1 + 80569 0.67 0.62109
Target:  5'- cGCCg-CCCagCCCGCGGGGccGUCgUCCUCc -3'
miRNA:   3'- -CGGgaGGG--GGGUGUCCC--UAG-AGGAGc -5'
6656 3' -61.4 NC_001847.1 + 40283 0.67 0.61121
Target:  5'- uGCCCgcgCCCCCCAa---GGUCccCCUCGg -3'
miRNA:   3'- -CGGGa--GGGGGGUguccCUAGa-GGAGC- -5'
6656 3' -61.4 NC_001847.1 + 15422 0.67 0.610223
Target:  5'- cGCCCUCggcgCCUCCGuuggcuuCGGGGGUCUgacUCUCGc -3'
miRNA:   3'- -CGGGAG----GGGGGU-------GUCCCUAGA---GGAGC- -5'
6656 3' -61.4 NC_001847.1 + 126525 0.67 0.581687
Target:  5'- gGCCgCUCCCCCgGCGGGGcUUgcgCUgCGg -3'
miRNA:   3'- -CGG-GAGGGGGgUGUCCCuAGa--GGaGC- -5'
6656 3' -61.4 NC_001847.1 + 102775 0.67 0.579727
Target:  5'- cGCCCgcgacgccggcgCCCCCCGCGcGGGggCUgggcccCCUCc -3'
miRNA:   3'- -CGGGa-----------GGGGGGUGU-CCCuaGA------GGAGc -5'
6656 3' -61.4 NC_001847.1 + 128476 0.68 0.562163
Target:  5'- uCCCUCCCCCCGCuAGcacaggcuugaaGGAacacugugUUCCUCGc -3'
miRNA:   3'- cGGGAGGGGGGUG-UC------------CCUa-------GAGGAGC- -5'
6656 3' -61.4 NC_001847.1 + 25663 0.68 0.562163
Target:  5'- uCCCUCCCCCCGCuAGcacaggcuugaaGGAacacugugUUCCUCGc -3'
miRNA:   3'- cGGGAGGGGGGUG-UC------------CCUa-------GAGGAGC- -5'
6656 3' -61.4 NC_001847.1 + 78104 0.68 0.552466
Target:  5'- -gCCUCggCCCACAGGGcgcgCUCCUUGu -3'
miRNA:   3'- cgGGAGggGGGUGUCCCua--GAGGAGC- -5'
6656 3' -61.4 NC_001847.1 + 88172 0.68 0.542821
Target:  5'- aGCCUgcgCCUCCCAaaguGGGGccggCUCCUUGg -3'
miRNA:   3'- -CGGGa--GGGGGGUgu--CCCUa---GAGGAGC- -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.