miRNA display CGI


Results 1 - 19 of 19 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
12493 3' -57.1 NC_003324.1 + 55304 1.09 0.000578
Target:  5'- cCGCGGCUGCUGGAACAAGCUGCCACAg -3'
miRNA:   3'- -GCGCCGACGACCUUGUUCGACGGUGU- -5'
12493 3' -57.1 NC_003324.1 + 4712 0.76 0.136923
Target:  5'- gGCGGCUgGCUGGAAaucCAgaaggcGGCUGCUACGg -3'
miRNA:   3'- gCGCCGA-CGACCUU---GU------UCGACGGUGU- -5'
12493 3' -57.1 NC_003324.1 + 44903 0.73 0.235109
Target:  5'- gCGCGGggGCUGGAuugcucgaugGCAAGCUG-CGCGg -3'
miRNA:   3'- -GCGCCgaCGACCU----------UGUUCGACgGUGU- -5'
12493 3' -57.1 NC_003324.1 + 12892 0.71 0.311054
Target:  5'- uGCGGCgcgucgaaacGCUGGAugGuuuuGCUGCCAg- -3'
miRNA:   3'- gCGCCGa---------CGACCUugUu---CGACGGUgu -5'
12493 3' -57.1 NC_003324.1 + 14575 0.71 0.303439
Target:  5'- uCGCGGcCUGCcGGcGCAAGCgGCCGg- -3'
miRNA:   3'- -GCGCC-GACGaCCuUGUUCGaCGGUgu -5'
12493 3' -57.1 NC_003324.1 + 54227 0.7 0.332336
Target:  5'- aGCGGCUGCUcaaagcgaaggcgcGGcACcGGUUGCCAUg -3'
miRNA:   3'- gCGCCGACGA--------------CCuUGuUCGACGGUGu -5'
12493 3' -57.1 NC_003324.1 + 12189 0.69 0.413572
Target:  5'- uGCGGa--CUGGAACGAGCcGCCGg- -3'
miRNA:   3'- gCGCCgacGACCUUGUUCGaCGGUgu -5'
12493 3' -57.1 NC_003324.1 + 23440 0.69 0.432575
Target:  5'- aGUGGCUG-UGGGACAAugacGCccGCCGCGa -3'
miRNA:   3'- gCGCCGACgACCUUGUU----CGa-CGGUGU- -5'
12493 3' -57.1 NC_003324.1 + 37994 0.68 0.462008
Target:  5'- gGCGGCcaUGCcGGAGCG-GUUGCgGCGc -3'
miRNA:   3'- gCGCCG--ACGaCCUUGUuCGACGgUGU- -5'
12493 3' -57.1 NC_003324.1 + 47528 0.68 0.482204
Target:  5'- -cCGGaCUGCUGcu-CAAGCUGCgGCAg -3'
miRNA:   3'- gcGCC-GACGACcuuGUUCGACGgUGU- -5'
12493 3' -57.1 NC_003324.1 + 8428 0.67 0.534427
Target:  5'- cCGcCGGCUGCaGGuGCAGGCggauuUGCgGCGc -3'
miRNA:   3'- -GC-GCCGACGaCCuUGUUCG-----ACGgUGU- -5'
12493 3' -57.1 NC_003324.1 + 21355 0.67 0.534427
Target:  5'- uGCGGacCUGCUGGAugAaccgggccuuAGCcucgaucgucUGCCACGu -3'
miRNA:   3'- gCGCC--GACGACCUugU----------UCG----------ACGGUGU- -5'
12493 3' -57.1 NC_003324.1 + 38658 0.66 0.555885
Target:  5'- uCGCGGaCUG-UGGAAgGAuauucCUGCCACAu -3'
miRNA:   3'- -GCGCC-GACgACCUUgUUc----GACGGUGU- -5'
12493 3' -57.1 NC_003324.1 + 35324 0.66 0.610455
Target:  5'- gCGcCGGCUGCUGcGGuuGCu-GUUGCUGCGg -3'
miRNA:   3'- -GC-GCCGACGAC-CU--UGuuCGACGGUGU- -5'
12493 3' -57.1 NC_003324.1 + 9486 0.66 0.599468
Target:  5'- aGCGuGgUGCcaaGAGCAAGCaUGCCACc -3'
miRNA:   3'- gCGC-CgACGac-CUUGUUCG-ACGGUGu -5'
12493 3' -57.1 NC_003324.1 + 32748 0.66 0.588509
Target:  5'- uGCGGUcuCUGGAugGAGCccGCaCGCAu -3'
miRNA:   3'- gCGCCGacGACCUugUUCGa-CG-GUGU- -5'
12493 3' -57.1 NC_003324.1 + 43632 0.66 0.577587
Target:  5'- gCGCGGCguguggcugaUGCUGGAagccuucaaggACAAGCUuCC-CAa -3'
miRNA:   3'- -GCGCCG----------ACGACCU-----------UGUUCGAcGGuGU- -5'
12493 3' -57.1 NC_003324.1 + 35465 0.66 0.555885
Target:  5'- gCGCgGGCgGCc-GAGCAGGCUGCaGCAg -3'
miRNA:   3'- -GCG-CCGaCGacCUUGUUCGACGgUGU- -5'
12493 3' -57.1 NC_003324.1 + 55045 0.66 0.555885
Target:  5'- gGCGGacgGCUGG-----GCUGCCGCGa -3'
miRNA:   3'- gCGCCga-CGACCuuguuCGACGGUGU- -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.