miRNA display CGI


Results 1 - 20 of 42 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
28907 5' -54.5 NC_006146.1 + 57486 0.73 0.671324
Target:  5'- cCGCGGGCGAUGCcagAUCAUGAauaUCUuaAGAa -3'
miRNA:   3'- -GCGUCCGCUGCGa--UAGUGCU---AGG--UCU- -5'
28907 5' -54.5 NC_006146.1 + 68071 0.66 0.950775
Target:  5'- aGCGGcGCGagcaaGCGCagagcccccgCGCGAUCCAGGu -3'
miRNA:   3'- gCGUC-CGC-----UGCGaua-------GUGCUAGGUCU- -5'
28907 5' -54.5 NC_006146.1 + 56537 0.66 0.955557
Target:  5'- aGCAGcUGACGC-GUCACGcgggCCAGGc -3'
miRNA:   3'- gCGUCcGCUGCGaUAGUGCua--GGUCU- -5'
28907 5' -54.5 NC_006146.1 + 156928 0.66 0.966104
Target:  5'- gGguGGCGGCGCUG--ACGGgcUCCGc- -3'
miRNA:   3'- gCguCCGCUGCGAUagUGCU--AGGUcu -5'
28907 5' -54.5 NC_006146.1 + 120691 0.7 0.840479
Target:  5'- uCGCGGGUgcacgggcgGACGCUGgagcagCACcuGAUCCGGGa -3'
miRNA:   3'- -GCGUCCG---------CUGCGAUa-----GUG--CUAGGUCU- -5'
28907 5' -54.5 NC_006146.1 + 154678 0.69 0.856378
Target:  5'- gGCGGGgGGCGCUGcugCugGGUggucugcgcCCAGAu -3'
miRNA:   3'- gCGUCCgCUGCGAUa--GugCUA---------GGUCU- -5'
28907 5' -54.5 NC_006146.1 + 95163 0.68 0.899033
Target:  5'- gGC-GGCGAUGUcggagagCACGGUCCAGu -3'
miRNA:   3'- gCGuCCGCUGCGaua----GUGCUAGGUCu -5'
28907 5' -54.5 NC_006146.1 + 160454 0.68 0.899033
Target:  5'- aCGaAGGCGGCGCUcUCGUGGucaUCCAGGu -3'
miRNA:   3'- -GCgUCCGCUGCGAuAGUGCU---AGGUCU- -5'
28907 5' -54.5 NC_006146.1 + 159391 0.75 0.529444
Target:  5'- uCGCAGGCcGCGCUGUCcACGAUCa--- -3'
miRNA:   3'- -GCGUCCGcUGCGAUAG-UGCUAGgucu -5'
28907 5' -54.5 NC_006146.1 + 170595 0.67 0.942978
Target:  5'- aGCuGGGCGugGCga--GCGcgCCGGGc -3'
miRNA:   3'- gCG-UCCGCugCGauagUGCuaGGUCU- -5'
28907 5' -54.5 NC_006146.1 + 44747 0.68 0.917295
Target:  5'- cCGCGGGCGGCugugGUUGUCGgGGcCCGGc -3'
miRNA:   3'- -GCGUCCGCUG----CGAUAGUgCUaGGUCu -5'
28907 5' -54.5 NC_006146.1 + 4379 0.68 0.917295
Target:  5'- cCGCGGGCuccccaggccGACGCcaugaagauUAUCuuccggACGGUCCAGGg -3'
miRNA:   3'- -GCGUCCG----------CUGCG---------AUAG------UGCUAGGUCU- -5'
28907 5' -54.5 NC_006146.1 + 10986 0.71 0.750908
Target:  5'- aGCAGGCGGCGCUG-C-CGGUgaCGGGg -3'
miRNA:   3'- gCGUCCGCUGCGAUaGuGCUAg-GUCU- -5'
28907 5' -54.5 NC_006146.1 + 50428 0.67 0.928284
Target:  5'- gGCAGGCaGGcCGCaagcuUCGCGG-CCAGAu -3'
miRNA:   3'- gCGUCCG-CU-GCGau---AGUGCUaGGUCU- -5'
28907 5' -54.5 NC_006146.1 + 130829 0.71 0.797556
Target:  5'- uGCAGGCccuccgccgggaGACGCUGUCcuACGGacacgCCGGAg -3'
miRNA:   3'- gCGUCCG------------CUGCGAUAG--UGCUa----GGUCU- -5'
28907 5' -54.5 NC_006146.1 + 53862 0.68 0.909642
Target:  5'- gGUAGGCGACGCUGgcccUCagcgcccccguaggGCGuagcccagGUCCAGGg -3'
miRNA:   3'- gCGUCCGCUGCGAU----AG--------------UGC--------UAGGUCU- -5'
28907 5' -54.5 NC_006146.1 + 60679 0.67 0.938317
Target:  5'- aGguGGCGGCuGCcGUCACccugCCGGAg -3'
miRNA:   3'- gCguCCGCUG-CGaUAGUGcua-GGUCU- -5'
28907 5' -54.5 NC_006146.1 + 125209 0.66 0.951595
Target:  5'- aGguGGCGGuCGUg--CAgGAUCCAGc -3'
miRNA:   3'- gCguCCGCU-GCGauaGUgCUAGGUCu -5'
28907 5' -54.5 NC_006146.1 + 153425 0.7 0.832242
Target:  5'- gGCGGGUGugGCUGgcUUugGAggggCCGGu -3'
miRNA:   3'- gCGUCCGCugCGAU--AGugCUa---GGUCu -5'
28907 5' -54.5 NC_006146.1 + 129007 0.69 0.878692
Target:  5'- cCGcCAGGCaGACGCgacUCA-GGUCCGGGg -3'
miRNA:   3'- -GC-GUCCG-CUGCGau-AGUgCUAGGUCU- -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.