miRNA display CGI


Results 1 - 20 of 21 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
17104 5' -57.1 NC_004333.2 + 21434 0.66 0.575025
Target:  5'- uGGGC-GGCgCAGGACGCGgaCGGaacUGUAc -3'
miRNA:   3'- gCCCGuUCG-GUCUUGCGCg-GCU---ACAU- -5'
17104 5' -57.1 NC_004333.2 + 3203 0.66 0.564087
Target:  5'- -cGGUGAGCCGGcccGGCGCGCCGc---- -3'
miRNA:   3'- gcCCGUUCGGUC---UUGCGCGGCuacau -5'
17104 5' -57.1 NC_004333.2 + 25465 0.66 0.564087
Target:  5'- aGGcGCGcucGCCGGAugGC-UCGAUGUGg -3'
miRNA:   3'- gCC-CGUu--CGGUCUugCGcGGCUACAU- -5'
17104 5' -57.1 NC_004333.2 + 28459 0.66 0.553206
Target:  5'- uCGGGCc-GCCAGuuacGCGCGCCa----- -3'
miRNA:   3'- -GCCCGuuCGGUCu---UGCGCGGcuacau -5'
17104 5' -57.1 NC_004333.2 + 38586 0.66 0.53164
Target:  5'- gCGGGCAucgugaagcGCCAGcuacagccgGGCGCGCCGcUGc- -3'
miRNA:   3'- -GCCCGUu--------CGGUC---------UUGCGCGGCuACau -5'
17104 5' -57.1 NC_004333.2 + 8608 0.67 0.479199
Target:  5'- cCGGGCAuGCCGGu-CGCGCUGu---- -3'
miRNA:   3'- -GCCCGUuCGGUCuuGCGCGGCuacau -5'
17104 5' -57.1 NC_004333.2 + 3281 0.67 0.458936
Target:  5'- gGGGCGGGC---GGCGCGCCGGg--- -3'
miRNA:   3'- gCCCGUUCGgucUUGCGCGGCUacau -5'
17104 5' -57.1 NC_004333.2 + 38053 0.68 0.452946
Target:  5'- gCGGGCAGuGCUuggAGAauguucgccaccgugACGCGgCCGAUGUc -3'
miRNA:   3'- -GCCCGUU-CGG---UCU---------------UGCGC-GGCUACAu -5'
17104 5' -57.1 NC_004333.2 + 248 0.68 0.439138
Target:  5'- aCGGGCAGuggacucgcGCCAG---GCGCCGAUcGUGu -3'
miRNA:   3'- -GCCCGUU---------CGGUCuugCGCGGCUA-CAU- -5'
17104 5' -57.1 NC_004333.2 + 15535 0.68 0.439138
Target:  5'- -cGGCAcGCCA-AGCGCGCCGAUc-- -3'
miRNA:   3'- gcCCGUuCGGUcUUGCGCGGCUAcau -5'
17104 5' -57.1 NC_004333.2 + 38688 0.68 0.429423
Target:  5'- aCGGGCAccacGGgCAGcGGCGCGcCCGGcUGUAg -3'
miRNA:   3'- -GCCCGU----UCgGUC-UUGCGC-GGCU-ACAU- -5'
17104 5' -57.1 NC_004333.2 + 29282 0.69 0.401057
Target:  5'- gGGGCAacGGCUGGAACGaCGCC-AUGc- -3'
miRNA:   3'- gCCCGU--UCGGUCUUGC-GCGGcUACau -5'
17104 5' -57.1 NC_004333.2 + 37747 0.69 0.382822
Target:  5'- cCGGGCcGGCCGacGAgcgggucgggcGCGCGCuCGAUGa- -3'
miRNA:   3'- -GCCCGuUCGGU--CU-----------UGCGCG-GCUACau -5'
17104 5' -57.1 NC_004333.2 + 43707 0.7 0.348043
Target:  5'- uGGuGCAGGCCGGAcgcACGgGCCG-UGa- -3'
miRNA:   3'- gCC-CGUUCGGUCU---UGCgCGGCuACau -5'
17104 5' -57.1 NC_004333.2 + 30074 0.7 0.33152
Target:  5'- gCGGGuCGAuGCCguagcgccgacGGAACGCGUCGAUGc- -3'
miRNA:   3'- -GCCC-GUU-CGG-----------UCUUGCGCGGCUACau -5'
17104 5' -57.1 NC_004333.2 + 8719 0.7 0.30783
Target:  5'- aCGaGCAAGCCGGGcgcCGCGCCGAg--- -3'
miRNA:   3'- -GCcCGUUCGGUCUu--GCGCGGCUacau -5'
17104 5' -57.1 NC_004333.2 + 42944 0.71 0.300226
Target:  5'- uGGGCucGCCGGGAUGCGCUGc---- -3'
miRNA:   3'- gCCCGuuCGGUCUUGCGCGGCuacau -5'
17104 5' -57.1 NC_004333.2 + 4660 0.73 0.203187
Target:  5'- aCGGGCAGGCCG--GCGCGCgGGUc-- -3'
miRNA:   3'- -GCCCGUUCGGUcuUGCGCGgCUAcau -5'
17104 5' -57.1 NC_004333.2 + 11902 0.78 0.095748
Target:  5'- cCGGcGCAAGCUGGAGCGCGCCGu---- -3'
miRNA:   3'- -GCC-CGUUCGGUCUUGCGCGGCuacau -5'
17104 5' -57.1 NC_004333.2 + 25205 0.8 0.067696
Target:  5'- uCGGGCAGGCCGcGAacguGCGCGCCGccGUGc -3'
miRNA:   3'- -GCCCGUUCGGU-CU----UGCGCGGCuaCAU- -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.