miRNA display CGI


Results 1 - 20 of 74 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
13990 3' -58.4 NC_003521.1 + 170869 0.66 0.890523
Target:  5'- -cGCGGGGGcgGGCGcGGGUgguCAggcguccggcgucgcGAAGCAGg -3'
miRNA:   3'- uuCGCCCCC--UCGC-CCCG---GU---------------UUUUGUC- -5'
13990 3' -58.4 NC_003521.1 + 186789 0.66 0.887891
Target:  5'- uGGUGGcGGcGGCGGGGgCAAGAagcACGGc -3'
miRNA:   3'- uUCGCC-CCcUCGCCCCgGUUUU---UGUC- -5'
13990 3' -58.4 NC_003521.1 + 122674 0.66 0.885226
Target:  5'- cGGUGGGGuggcgucgccgguGAucaugggcgucucgGCGGGGCUGGAGGCGGu -3'
miRNA:   3'- uUCGCCCC-------------CU--------------CGCCCCGGUUUUUGUC- -5'
13990 3' -58.4 NC_003521.1 + 61253 0.66 0.881165
Target:  5'- uGAGCGucgcGGuGUGGGGCCAGugucGCAGg -3'
miRNA:   3'- -UUCGCcc--CCuCGCCCCGGUUuu--UGUC- -5'
13990 3' -58.4 NC_003521.1 + 71443 0.66 0.881165
Target:  5'- gAGGCGGGGaucGCGGGG--GAAGACAu -3'
miRNA:   3'- -UUCGCCCCcu-CGCCCCggUUUUUGUc -5'
13990 3' -58.4 NC_003521.1 + 130773 0.66 0.881165
Target:  5'- -cGcCGGGGGAGCagaaaGGGaaGAAGACGGc -3'
miRNA:   3'- uuC-GCCCCCUCGc----CCCggUUUUUGUC- -5'
13990 3' -58.4 NC_003521.1 + 204778 0.66 0.881165
Target:  5'- cGGCGGcGGGcuuacGGCGaagaGGGCCA-AGACGGu -3'
miRNA:   3'- uUCGCC-CCC-----UCGC----CCCGGUuUUUGUC- -5'
13990 3' -58.4 NC_003521.1 + 172455 0.66 0.874229
Target:  5'- gGAGaGGGGaGGCaGGGCCGGcAGCGGu -3'
miRNA:   3'- -UUCgCCCCcUCGcCCCGGUUuUUGUC- -5'
13990 3' -58.4 NC_003521.1 + 123537 0.66 0.874229
Target:  5'- cAGCGugaGGGGAGcCGGcaccacGGCCGAcGACGGc -3'
miRNA:   3'- uUCGC---CCCCUC-GCC------CCGGUUuUUGUC- -5'
13990 3' -58.4 NC_003521.1 + 103551 0.66 0.874229
Target:  5'- -uGCGuGGGGAuGaCGGGGCCcAGGucgcccgcGCAGa -3'
miRNA:   3'- uuCGC-CCCCU-C-GCCCCGGuUUU--------UGUC- -5'
13990 3' -58.4 NC_003521.1 + 193270 0.66 0.874229
Target:  5'- cGGCuGcGGAGCGGGuGCC-GGGACGGg -3'
miRNA:   3'- uUCGcCcCCUCGCCC-CGGuUUUUGUC- -5'
13990 3' -58.4 NC_003521.1 + 91492 0.66 0.867091
Target:  5'- uGGGUGGGGGA-UGGGcaCCAAcAACAGg -3'
miRNA:   3'- -UUCGCCCCCUcGCCCc-GGUUuUUGUC- -5'
13990 3' -58.4 NC_003521.1 + 53360 0.66 0.867091
Target:  5'- cGGCGGcGGA--GGGGCCGAcagaccGAGCAGg -3'
miRNA:   3'- uUCGCCcCCUcgCCCCGGUU------UUUGUC- -5'
13990 3' -58.4 NC_003521.1 + 122765 0.66 0.867091
Target:  5'- cGGGCacGGGGA-UGGcGGCCGAGAGCAa -3'
miRNA:   3'- -UUCGc-CCCCUcGCC-CCGGUUUUUGUc -5'
13990 3' -58.4 NC_003521.1 + 43564 0.66 0.867091
Target:  5'- gAGGCGGccgcugacugGGGGGaCGGGGgCAAA-ACGGa -3'
miRNA:   3'- -UUCGCC----------CCCUC-GCCCCgGUUUuUGUC- -5'
13990 3' -58.4 NC_003521.1 + 187890 0.66 0.852222
Target:  5'- cGGGCGGcacGGGcGGCGGGGgCAGGucgaucAGCAGc -3'
miRNA:   3'- -UUCGCC---CCC-UCGCCCCgGUUU------UUGUC- -5'
13990 3' -58.4 NC_003521.1 + 60696 0.66 0.852222
Target:  5'- -cGCGGGGGAccCGGGGgCGGc-GCGGg -3'
miRNA:   3'- uuCGCCCCCUc-GCCCCgGUUuuUGUC- -5'
13990 3' -58.4 NC_003521.1 + 19459 0.66 0.852222
Target:  5'- -cGCGGcGGGAccaugucgcuGCGcGGCCAGGuGCAGg -3'
miRNA:   3'- uuCGCC-CCCU----------CGCcCCGGUUUuUGUC- -5'
13990 3' -58.4 NC_003521.1 + 198319 0.67 0.844503
Target:  5'- gGGGUGGGGGAugGGcGGCUAAAccuguGACGGg -3'
miRNA:   3'- -UUCGCCCCCUcgCC-CCGGUUU-----UUGUC- -5'
13990 3' -58.4 NC_003521.1 + 155404 0.67 0.844503
Target:  5'- cGGCGGGGG-GCuGGGCacCGGAGGCc- -3'
miRNA:   3'- uUCGCCCCCuCGcCCCG--GUUUUUGuc -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.