miRNA display CGI


Results 1 - 20 of 32 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
12987 3' -57.2 NC_003387.1 + 46209 1.09 0.000542
Target:  5'- gACGGGCGUCGGAACAUGCUGCAGCAGg -3'
miRNA:   3'- -UGCCCGCAGCCUUGUACGACGUCGUC- -5'
12987 3' -57.2 NC_003387.1 + 17494 0.74 0.185105
Target:  5'- uGCGGGCGccgcggccguagugcUCGGccAGCAUGC-GCAGCGGc -3'
miRNA:   3'- -UGCCCGC---------------AGCC--UUGUACGaCGUCGUC- -5'
12987 3' -57.2 NC_003387.1 + 4576 0.73 0.220708
Target:  5'- cGCGGGCcUCGGuGGCGcGCUGCGcGCGGg -3'
miRNA:   3'- -UGCCCGcAGCC-UUGUaCGACGU-CGUC- -5'
12987 3' -57.2 NC_003387.1 + 2722 0.71 0.307805
Target:  5'- cGCGGGCGgCGG-GCAgGCcacGCAGCAGc -3'
miRNA:   3'- -UGCCCGCaGCCuUGUaCGa--CGUCGUC- -5'
12987 3' -57.2 NC_003387.1 + 23723 0.7 0.364645
Target:  5'- gACGGGCG-CaGcGCAuUGCUGCAGCu- -3'
miRNA:   3'- -UGCCCGCaGcCuUGU-ACGACGUCGuc -5'
12987 3' -57.2 NC_003387.1 + 34215 0.7 0.364645
Target:  5'- cCGcGGCGgccCGaGAGCAUGCUGCAGg-- -3'
miRNA:   3'- uGC-CCGCa--GC-CUUGUACGACGUCguc -5'
12987 3' -57.2 NC_003387.1 + 31186 0.7 0.339424
Target:  5'- cGCGGGCGUCGccg-GUGCUgauacucagcGCAGCGGc -3'
miRNA:   3'- -UGCCCGCAGCcuugUACGA----------CGUCGUC- -5'
12987 3' -57.2 NC_003387.1 + 46726 0.69 0.400235
Target:  5'- gGCGGGCGagUGGAcgAUGCacgGCGGCAa -3'
miRNA:   3'- -UGCCCGCa-GCCUugUACGa--CGUCGUc -5'
12987 3' -57.2 NC_003387.1 + 20036 0.69 0.400235
Target:  5'- gUGGGUGUCGacGACGUGC-GCGGCGa -3'
miRNA:   3'- uGCCCGCAGCc-UUGUACGaCGUCGUc -5'
12987 3' -57.2 NC_003387.1 + 31050 0.69 0.409472
Target:  5'- -aGGGCGUCGGcgaacACGUGCU-CGGCc- -3'
miRNA:   3'- ugCCCGCAGCCu----UGUACGAcGUCGuc -5'
12987 3' -57.2 NC_003387.1 + 6090 0.68 0.42834
Target:  5'- -gGGGCGUCGucggcaggcucGAacaccugcgACAUGCgcgGCAGCGGc -3'
miRNA:   3'- ugCCCGCAGC-----------CU---------UGUACGa--CGUCGUC- -5'
12987 3' -57.2 NC_003387.1 + 51792 0.68 0.444775
Target:  5'- cUGGGCGUCgaucgccccgagugGGAcugagaggagcgACAUGCUGCAGaAGa -3'
miRNA:   3'- uGCCCGCAG--------------CCU------------UGUACGACGUCgUC- -5'
12987 3' -57.2 NC_003387.1 + 28207 0.68 0.447711
Target:  5'- --aGGUGgCGGAACggGCUGCGGCuGa -3'
miRNA:   3'- ugcCCGCaGCCUUGuaCGACGUCGuC- -5'
12987 3' -57.2 NC_003387.1 + 42731 0.68 0.457578
Target:  5'- cGCGGGaacggGUCGGGuGCGccCUGCGGCGGa -3'
miRNA:   3'- -UGCCCg----CAGCCU-UGUacGACGUCGUC- -5'
12987 3' -57.2 NC_003387.1 + 33964 0.68 0.467559
Target:  5'- cCGGG-GUCGGGuaugaGC-UGCcGCAGCGGg -3'
miRNA:   3'- uGCCCgCAGCCU-----UGuACGaCGUCGUC- -5'
12987 3' -57.2 NC_003387.1 + 30249 0.68 0.477652
Target:  5'- cCGGGuCGUCGGggUcgGCgccgggGUcgGGCAGc -3'
miRNA:   3'- uGCCC-GCAGCCuuGuaCGa-----CG--UCGUC- -5'
12987 3' -57.2 NC_003387.1 + 42806 0.67 0.487851
Target:  5'- -aGGGCGUCGaucACGUG-UGCgAGCAGg -3'
miRNA:   3'- ugCCCGCAGCcu-UGUACgACG-UCGUC- -5'
12987 3' -57.2 NC_003387.1 + 20168 0.67 0.508547
Target:  5'- -aGGGCGUCGaGGGCGcgguugaugcgcUGCUGCGccucGCAc -3'
miRNA:   3'- ugCCCGCAGC-CUUGU------------ACGACGU----CGUc -5'
12987 3' -57.2 NC_003387.1 + 8769 0.67 0.529605
Target:  5'- uGCGGGCcuUCGc--CGUGCgGCGGCGGg -3'
miRNA:   3'- -UGCCCGc-AGCcuuGUACGaCGUCGUC- -5'
12987 3' -57.2 NC_003387.1 + 52354 0.67 0.529605
Target:  5'- gAUGGGCG-CGGAACc-GCUcGC-GCAGa -3'
miRNA:   3'- -UGCCCGCaGCCUUGuaCGA-CGuCGUC- -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.