miRNA display CGI


Results 1 - 20 of 60 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
21572 3' -55.7 NC_004812.1 + 30295 0.66 0.918266
Target:  5'- -cCGAGGg-GUCC-CUGGGGAcCUCCGc -3'
miRNA:   3'- caGCUCCagCAGGaGGCCUUU-GAGGC- -5'
21572 3' -55.7 NC_004812.1 + 98015 0.68 0.880433
Target:  5'- cUCGAGGUCcggGUCCgguuccgguUCCGGGucgGGCUCgGg -3'
miRNA:   3'- cAGCUCCAG---CAGG---------AGGCCU---UUGAGgC- -5'
21572 3' -55.7 NC_004812.1 + 57651 0.67 0.887298
Target:  5'- cGUCGccaaacAGGUCGUCCgcggccCCGGGucucUUCCGg -3'
miRNA:   3'- -CAGC------UCCAGCAGGa-----GGCCUuu--GAGGC- -5'
21572 3' -55.7 NC_004812.1 + 7608 0.67 0.893944
Target:  5'- -cCGGGGUCGgaggUCgcgCCGGAGACgcgcggcggCCGg -3'
miRNA:   3'- caGCUCCAGCa---GGa--GGCCUUUGa--------GGC- -5'
21572 3' -55.7 NC_004812.1 + 38839 0.67 0.893944
Target:  5'- gGUUGAGGUCcagcugGUCCUCCuGcAugUCCa -3'
miRNA:   3'- -CAGCUCCAG------CAGGAGGcCuUugAGGc -5'
21572 3' -55.7 NC_004812.1 + 98292 0.67 0.900366
Target:  5'- -aCGuGcUCGUCgUCCGG-GGCUCCGg -3'
miRNA:   3'- caGCuCcAGCAGgAGGCCuUUGAGGC- -5'
21572 3' -55.7 NC_004812.1 + 134262 0.67 0.900366
Target:  5'- -cUGGGGUCGUCUUCCccgagucuagGGGAACcaggUCCa -3'
miRNA:   3'- caGCUCCAGCAGGAGG----------CCUUUG----AGGc -5'
21572 3' -55.7 NC_004812.1 + 92497 0.67 0.906562
Target:  5'- cGUCGAGGcggCGgcccggCUUCCGGGG--UCCGg -3'
miRNA:   3'- -CAGCUCCa--GCa-----GGAGGCCUUugAGGC- -5'
21572 3' -55.7 NC_004812.1 + 35008 0.67 0.906562
Target:  5'- cGUUGAGGUCGgcgagCUCggCGGggGC-CCGg -3'
miRNA:   3'- -CAGCUCCAGCag---GAG--GCCuuUGaGGC- -5'
21572 3' -55.7 NC_004812.1 + 99245 0.68 0.873353
Target:  5'- -gCGGGGgcCGUCCgggCCGGAGGCacgcaCCGg -3'
miRNA:   3'- caGCUCCa-GCAGGa--GGCCUUUGa----GGC- -5'
21572 3' -55.7 NC_004812.1 + 1520 0.68 0.866062
Target:  5'- -aCGGGGcCGUCC-CCGGgcGC-CCGc -3'
miRNA:   3'- caGCUCCaGCAGGaGGCCuuUGaGGC- -5'
21572 3' -55.7 NC_004812.1 + 135379 0.68 0.861589
Target:  5'- -cCGAGGgCGcUCCUCCGGuuccggguuccacgcAcGCUCCGg -3'
miRNA:   3'- caGCUCCaGC-AGGAGGCC---------------UuUGAGGC- -5'
21572 3' -55.7 NC_004812.1 + 30385 0.73 0.626368
Target:  5'- gGUCGGGGcUC-UCCUCCGGggGCgcggcggCCu -3'
miRNA:   3'- -CAGCUCC-AGcAGGAGGCCuuUGa------GGc -5'
21572 3' -55.7 NC_004812.1 + 681 0.72 0.676764
Target:  5'- -gCGAGGggagcgCGUCC-CCGGGuccggAGCUCCGu -3'
miRNA:   3'- caGCUCCa-----GCAGGaGGCCU-----UUGAGGC- -5'
21572 3' -55.7 NC_004812.1 + 155313 0.71 0.69673
Target:  5'- --gGGGGUCGgcgccccgCCUCCGGGGACcCUGg -3'
miRNA:   3'- cagCUCCAGCa-------GGAGGCCUUUGaGGC- -5'
21572 3' -55.7 NC_004812.1 + 83415 0.7 0.782952
Target:  5'- -aCG-GGUCG-CCUCCGGGGACguggucgCCa -3'
miRNA:   3'- caGCuCCAGCaGGAGGCCUUUGa------GGc -5'
21572 3' -55.7 NC_004812.1 + 46650 0.7 0.79199
Target:  5'- uGUUGGGGUgggGUCCguggCCGGGgggcAGCUCCGc -3'
miRNA:   3'- -CAGCUCCAg--CAGGa---GGCCU----UUGAGGC- -5'
21572 3' -55.7 NC_004812.1 + 102964 0.7 0.79199
Target:  5'- cGUCGGGGUCGuagucggugUCgUCgGGcAGCUCCa -3'
miRNA:   3'- -CAGCUCCAGC---------AGgAGgCCuUUGAGGc -5'
21572 3' -55.7 NC_004812.1 + 98724 0.69 0.818227
Target:  5'- -gCGGGGUCGUUCUCgcgCGGggGCagCGc -3'
miRNA:   3'- caGCUCCAGCAGGAG---GCCuuUGagGC- -5'
21572 3' -55.7 NC_004812.1 + 90877 0.68 0.850871
Target:  5'- -aCGAGcugCG-CCUCCGGGAcggucacgaGCUCCGg -3'
miRNA:   3'- caGCUCca-GCaGGAGGCCUU---------UGAGGC- -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.