miRNA display CGI


Results 1 - 20 of 34 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
13974 3' -59.7 NC_003521.1 + 208052 1.06 0.003206
Target:  5'- cUCUCGCCGUGAGGAAGCGGGAGGGAAg -3'
miRNA:   3'- -AGAGCGGCACUCCUUCGCCCUCCCUU- -5'
13974 3' -59.7 NC_003521.1 + 19085 0.76 0.310136
Target:  5'- ---gGCCGUGAGGAGGagggggacgGGGAGGGAGa -3'
miRNA:   3'- agagCGGCACUCCUUCg--------CCCUCCCUU- -5'
13974 3' -59.7 NC_003521.1 + 123355 0.76 0.316989
Target:  5'- -gUCGCCGggugugGAGGAGGCGGcGGGGGc- -3'
miRNA:   3'- agAGCGGCa-----CUCCUUCGCC-CUCCCuu -5'
13974 3' -59.7 NC_003521.1 + 13891 0.75 0.352956
Target:  5'- aUUUCGCCG-GGGGGcccGGCGcGGAGGGGg -3'
miRNA:   3'- -AGAGCGGCaCUCCU---UCGC-CCUCCCUu -5'
13974 3' -59.7 NC_003521.1 + 197275 0.74 0.383745
Target:  5'- --gCGCCGgcgGcGGGGAGCGGGAGGGc- -3'
miRNA:   3'- agaGCGGCa--C-UCCUUCGCCCUCCCuu -5'
13974 3' -59.7 NC_003521.1 + 123523 0.72 0.495168
Target:  5'- aCUcCGUCGUGGGGcAGCGuGAGGGGAg -3'
miRNA:   3'- aGA-GCGGCACUCCuUCGCcCUCCCUU- -5'
13974 3' -59.7 NC_003521.1 + 100718 0.71 0.570527
Target:  5'- --cCGCUGaugGAGGAGGCGGGGGGu-- -3'
miRNA:   3'- agaGCGGCa--CUCCUUCGCCCUCCcuu -5'
13974 3' -59.7 NC_003521.1 + 151105 0.71 0.580179
Target:  5'- gUCggGCCGcUGGGGGauGGCGGG-GGGAAu -3'
miRNA:   3'- -AGagCGGC-ACUCCU--UCGCCCuCCCUU- -5'
13974 3' -59.7 NC_003521.1 + 185721 0.69 0.671701
Target:  5'- gUCUCGCCGggugcgGAGGugaucgccGAGCGGGugcgccggagcgccuAGGGGc -3'
miRNA:   3'- -AGAGCGGCa-----CUCC--------UUCGCCC---------------UCCCUu -5'
13974 3' -59.7 NC_003521.1 + 192420 0.69 0.677518
Target:  5'- cCUCGCCGagacucGAGGGAGacgaaGGaGAGGGGc -3'
miRNA:   3'- aGAGCGGCa-----CUCCUUCg----CC-CUCCCUu -5'
13974 3' -59.7 NC_003521.1 + 239094 0.68 0.725359
Target:  5'- -gUCGCgG-GAGGAAcGCgagGGGAGGGGAc -3'
miRNA:   3'- agAGCGgCaCUCCUU-CG---CCCUCCCUU- -5'
13974 3' -59.7 NC_003521.1 + 31032 0.68 0.725359
Target:  5'- gUUCGUgGUGguGGGggGUGGGAGGa-- -3'
miRNA:   3'- aGAGCGgCAC--UCCuuCGCCCUCCcuu -5'
13974 3' -59.7 NC_003521.1 + 155379 0.68 0.73474
Target:  5'- uUCUCGCCGgcgcggacgacGAGGccGGCGGGGGGc-- -3'
miRNA:   3'- -AGAGCGGCa----------CUCCu-UCGCCCUCCcuu -5'
13974 3' -59.7 NC_003521.1 + 128300 0.68 0.762363
Target:  5'- gCUCGCCGcggaaaucggUGuGGAAGCGGauaaAGGGGu -3'
miRNA:   3'- aGAGCGGC----------ACuCCUUCGCCc---UCCCUu -5'
13974 3' -59.7 NC_003521.1 + 67258 0.67 0.771371
Target:  5'- -aUCGacCCGUGgcAGGAgGGCGGGcAGGGAGg -3'
miRNA:   3'- agAGC--GGCAC--UCCU-UCGCCC-UCCCUU- -5'
13974 3' -59.7 NC_003521.1 + 232571 0.67 0.771371
Target:  5'- --cUGCUGUGuGGuGAGCGGGGGGcGAc -3'
miRNA:   3'- agaGCGGCACuCC-UUCGCCCUCC-CUu -5'
13974 3' -59.7 NC_003521.1 + 105004 0.67 0.771371
Target:  5'- cUUCGCUGcUGcAGG-AGCGGGAacGGGAGc -3'
miRNA:   3'- aGAGCGGC-AC-UCCuUCGCCCU--CCCUU- -5'
13974 3' -59.7 NC_003521.1 + 172911 0.67 0.780267
Target:  5'- cCUCGUCcuucuggGAGGAGGaGGGAGGGu- -3'
miRNA:   3'- aGAGCGGca-----CUCCUUCgCCCUCCCuu -5'
13974 3' -59.7 NC_003521.1 + 7975 0.67 0.780267
Target:  5'- ---gGCCGgGAGGGuccgcGGCGGcGGGGGAGg -3'
miRNA:   3'- agagCGGCaCUCCU-----UCGCC-CUCCCUU- -5'
13974 3' -59.7 NC_003521.1 + 28032 0.67 0.786422
Target:  5'- --aCGCCGcG-GGGAGCGGGAcccaacagaggcggGGGAGa -3'
miRNA:   3'- agaGCGGCaCuCCUUCGCCCU--------------CCCUU- -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.