miRNA display CGI


Results 1 - 20 of 31 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
1345 5' -62.5 NC_001335.1 + 20209 0.66 0.359172
Target:  5'- -aGCCGuCCCgGAGCGGgaucuuCUGCAGCagguCUUCg -3'
miRNA:   3'- agCGGU-GGG-CUCGCC------GACGUCG----GAGG- -5'
1345 5' -62.5 NC_001335.1 + 9767 0.66 0.359172
Target:  5'- aCGCCgACCCGA-CGGUccCAGgCUCCc -3'
miRNA:   3'- aGCGG-UGGGCUcGCCGacGUCgGAGG- -5'
1345 5' -62.5 NC_001335.1 + 10471 0.66 0.359172
Target:  5'- cUCGUCAUCgagguUGAGCc-CUGCGGCUUCCg -3'
miRNA:   3'- -AGCGGUGG-----GCUCGccGACGUCGGAGG- -5'
1345 5' -62.5 NC_001335.1 + 22470 0.66 0.35105
Target:  5'- -aGCUGCauuCGAggcuGCGGuCUGCAGCCacUCCa -3'
miRNA:   3'- agCGGUGg--GCU----CGCC-GACGUCGG--AGG- -5'
1345 5' -62.5 NC_001335.1 + 185 0.66 0.35105
Target:  5'- aCGCCACUccugaCGGGUGGCUGUcaaGGauaCUCa -3'
miRNA:   3'- aGCGGUGG-----GCUCGCCGACG---UCg--GAGg -5'
1345 5' -62.5 NC_001335.1 + 32688 0.66 0.34306
Target:  5'- gCGCCGgCCaacGGCGGCgGCGGUggCCa -3'
miRNA:   3'- aGCGGUgGGc--UCGCCGaCGUCGgaGG- -5'
1345 5' -62.5 NC_001335.1 + 48759 0.66 0.34306
Target:  5'- aUCGaCCucgaACCCGuagcgGGCGGC-GCaAGCCUCg -3'
miRNA:   3'- -AGC-GG----UGGGC-----UCGCCGaCG-UCGGAGg -5'
1345 5' -62.5 NC_001335.1 + 1270 0.66 0.34306
Target:  5'- -aGCCGgCgGcGGUGGCaGCAGCC-CCa -3'
miRNA:   3'- agCGGUgGgC-UCGCCGaCGUCGGaGG- -5'
1345 5' -62.5 NC_001335.1 + 31505 0.66 0.327476
Target:  5'- cUCGCCAgCCaCGAcGUGGaaGCGGuCCUCg -3'
miRNA:   3'- -AGCGGU-GG-GCU-CGCCgaCGUC-GGAGg -5'
1345 5' -62.5 NC_001335.1 + 28576 0.66 0.319882
Target:  5'- cUCGUCGCCUGcgggaaGGUGGCgcacuCGGCgCUCCa -3'
miRNA:   3'- -AGCGGUGGGC------UCGCCGac---GUCG-GAGG- -5'
1345 5' -62.5 NC_001335.1 + 39233 0.67 0.283905
Target:  5'- uUCGCCGCCCu--CGGCacgcGCGuCCUCCu -3'
miRNA:   3'- -AGCGGUGGGcucGCCGa---CGUcGGAGG- -5'
1345 5' -62.5 NC_001335.1 + 6983 0.67 0.283905
Target:  5'- gCGCCugCUuGGCGGaacuCUGUGGCC-CCg -3'
miRNA:   3'- aGCGGugGGcUCGCC----GACGUCGGaGG- -5'
1345 5' -62.5 NC_001335.1 + 18052 0.67 0.283219
Target:  5'- -gGCCggcgaagACCCGu-UGGUgaagGCAGCCUCCg -3'
miRNA:   3'- agCGG-------UGGGCucGCCGa---CGUCGGAGG- -5'
1345 5' -62.5 NC_001335.1 + 25827 0.68 0.270436
Target:  5'- uUCGCCcugucguucacgGCUcucagCGAGCuGGCUGCGGCCa-- -3'
miRNA:   3'- -AGCGG------------UGG-----GCUCG-CCGACGUCGGagg -5'
1345 5' -62.5 NC_001335.1 + 3103 0.68 0.263897
Target:  5'- cUCGCCAaggCGAGCGGCgGgAGCUgauggUCCc -3'
miRNA:   3'- -AGCGGUgg-GCUCGCCGaCgUCGG-----AGG- -5'
1345 5' -62.5 NC_001335.1 + 1148 0.68 0.263897
Target:  5'- -aGCC-CCCGgaucgGGCGGCguagGCGGCgUCg -3'
miRNA:   3'- agCGGuGGGC-----UCGCCGa---CGUCGgAGg -5'
1345 5' -62.5 NC_001335.1 + 19160 0.68 0.257486
Target:  5'- cUCGCCGuagaucaacCCCGgcgucuugagccGGCGGUUGCGGaaCUCCu -3'
miRNA:   3'- -AGCGGU---------GGGC------------UCGCCGACGUCg-GAGG- -5'
1345 5' -62.5 NC_001335.1 + 5604 0.68 0.257486
Target:  5'- gCGCCGgCCGuAGCGGCaggcaccguacGCAGCCagCg -3'
miRNA:   3'- aGCGGUgGGC-UCGCCGa----------CGUCGGagG- -5'
1345 5' -62.5 NC_001335.1 + 25198 0.68 0.239018
Target:  5'- cUCGCC-CgCGAGCcaGGCUuCGGCgUCCa -3'
miRNA:   3'- -AGCGGuGgGCUCG--CCGAcGUCGgAGG- -5'
1345 5' -62.5 NC_001335.1 + 829 0.68 0.239018
Target:  5'- gCGCCACaCC-AGCGGgaGCGGUagacgUUCCa -3'
miRNA:   3'- aGCGGUG-GGcUCGCCgaCGUCG-----GAGG- -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.