miRNA display CGI


Results 1 - 20 of 22 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
29558 5' -53.4 NC_006151.1 + 118965 0.66 0.953477
Target:  5'- -aGGCgCUCGUcGCcgccgGCGUgUACGACGAg -3'
miRNA:   3'- agCCG-GAGCA-CGa----CGUAgAUGUUGUU- -5'
29558 5' -53.4 NC_006151.1 + 6165 0.66 0.953477
Target:  5'- cUCGGCCUCG-GCgGCGUCg------- -3'
miRNA:   3'- -AGCCGGAGCaCGaCGUAGauguuguu -5'
29558 5' -53.4 NC_006151.1 + 72726 0.66 0.949219
Target:  5'- cUCGGCCcCGaGggGCGUCcGCAGCAGc -3'
miRNA:   3'- -AGCCGGaGCaCgaCGUAGaUGUUGUU- -5'
29558 5' -53.4 NC_006151.1 + 5891 0.66 0.949219
Target:  5'- cCGGCCUCugccgcugcgaGUGCUGCcgggGUCgGCGGCc- -3'
miRNA:   3'- aGCCGGAG-----------CACGACG----UAGaUGUUGuu -5'
29558 5' -53.4 NC_006151.1 + 113381 0.66 0.939946
Target:  5'- aCGGCga-GUGcCUGC-UCUGCAACAu -3'
miRNA:   3'- aGCCGgagCAC-GACGuAGAUGUUGUu -5'
29558 5' -53.4 NC_006151.1 + 104574 0.66 0.939946
Target:  5'- gCGGCgCgcggaCGUGCUGCAggccgGCGGCAGc -3'
miRNA:   3'- aGCCG-Ga----GCACGACGUaga--UGUUGUU- -5'
29558 5' -53.4 NC_006151.1 + 71287 0.66 0.939946
Target:  5'- aCGGCCUCGggggccgGCgagcaccGCGUCUucacCGGCAAg -3'
miRNA:   3'- aGCCGGAGCa------CGa------CGUAGAu---GUUGUU- -5'
29558 5' -53.4 NC_006151.1 + 65544 0.66 0.936965
Target:  5'- aCGGCCUCGUggccgaagccggcgcGgaGCGUCUucACGGCc- -3'
miRNA:   3'- aGCCGGAGCA---------------CgaCGUAGA--UGUUGuu -5'
29558 5' -53.4 NC_006151.1 + 109952 0.67 0.92411
Target:  5'- gCGGCCUCG-GCcGCGUCUGg----- -3'
miRNA:   3'- aGCCGGAGCaCGaCGUAGAUguuguu -5'
29558 5' -53.4 NC_006151.1 + 128007 0.67 0.92411
Target:  5'- gCGGUCgcggggCGgcgGCgacgGCGUCUGCGACGc -3'
miRNA:   3'- aGCCGGa-----GCa--CGa---CGUAGAUGUUGUu -5'
29558 5' -53.4 NC_006151.1 + 131817 0.67 0.918313
Target:  5'- cUCGGCCUCG-GCUaGCGUCacCGugGu -3'
miRNA:   3'- -AGCCGGAGCaCGA-CGUAGauGUugUu -5'
29558 5' -53.4 NC_006151.1 + 114685 0.67 0.912258
Target:  5'- -aGGCCUCGUGCUcgaagggcGCGUCcccgGgGGCGGu -3'
miRNA:   3'- agCCGGAGCACGA--------CGUAGa---UgUUGUU- -5'
29558 5' -53.4 NC_006151.1 + 74311 0.67 0.905946
Target:  5'- cUCGGCgUCGUGgUGCGggUGCAGgGg -3'
miRNA:   3'- -AGCCGgAGCACgACGUagAUGUUgUu -5'
29558 5' -53.4 NC_006151.1 + 20820 0.67 0.905946
Target:  5'- -aGGCCUCGUGgUGCA-CgcgGgGGCAGa -3'
miRNA:   3'- agCCGGAGCACgACGUaGa--UgUUGUU- -5'
29558 5' -53.4 NC_006151.1 + 138931 0.67 0.89938
Target:  5'- aCGGUCaUCG-GCUGCAgCUACAcCAAg -3'
miRNA:   3'- aGCCGG-AGCaCGACGUaGAUGUuGUU- -5'
29558 5' -53.4 NC_006151.1 + 141275 0.68 0.878192
Target:  5'- -gGGCCUCGgcgGCUGCgGUCcgAUGACGGu -3'
miRNA:   3'- agCCGGAGCa--CGACG-UAGa-UGUUGUU- -5'
29558 5' -53.4 NC_006151.1 + 4735 0.69 0.854868
Target:  5'- -gGGCCUCGUGCUGCuucCU-CGAg-- -3'
miRNA:   3'- agCCGGAGCACGACGua-GAuGUUguu -5'
29558 5' -53.4 NC_006151.1 + 114184 0.69 0.846647
Target:  5'- cUGGCCUaCGUGCaGCAgcUCaACAGCAu -3'
miRNA:   3'- aGCCGGA-GCACGaCGU--AGaUGUUGUu -5'
29558 5' -53.4 NC_006151.1 + 51371 0.69 0.846647
Target:  5'- cCGGCC-CGUGCUGgAUCgugacGCGGCc- -3'
miRNA:   3'- aGCCGGaGCACGACgUAGa----UGUUGuu -5'
29558 5' -53.4 NC_006151.1 + 104283 0.69 0.846647
Target:  5'- -gGGCC-CGccGCUGCAggcgCUGCAGCGg -3'
miRNA:   3'- agCCGGaGCa-CGACGUa---GAUGUUGUu -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.