miRNA display CGI


Results 1 - 20 of 41 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
16303 3' -54.2 NC_004084.1 + 6255 0.66 0.833072
Target:  5'- gCGGuUCGUcGACGUGGUcg--GCGUCCa -3'
miRNA:   3'- -GCC-GGUAcCUGCGCCAuucaUGCAGG- -5'
16303 3' -54.2 NC_004084.1 + 34355 0.66 0.824108
Target:  5'- gCGGCaugAUGGACGCcGcAAccGCGUCCa -3'
miRNA:   3'- -GCCGg--UACCUGCGcCaUUcaUGCAGG- -5'
16303 3' -54.2 NC_004084.1 + 41052 0.66 0.814946
Target:  5'- aCGGCCcgauccaGAaGCGGUccgcGAGUACGUCg -3'
miRNA:   3'- -GCCGGuac----CUgCGCCA----UUCAUGCAGg -5'
16303 3' -54.2 NC_004084.1 + 6459 0.66 0.814946
Target:  5'- -cGCCGUGGA-GCGGg----AUGUCCu -3'
miRNA:   3'- gcCGGUACCUgCGCCauucaUGCAGG- -5'
16303 3' -54.2 NC_004084.1 + 52661 0.66 0.805596
Target:  5'- aGGCCccGG-CGgGGgcAGUGcCGUCa -3'
miRNA:   3'- gCCGGuaCCuGCgCCauUCAU-GCAGg -5'
16303 3' -54.2 NC_004084.1 + 17959 0.66 0.805596
Target:  5'- aGGCCguGUGGACGUcGUcGGUGuCGcCCu -3'
miRNA:   3'- gCCGG--UACCUGCGcCAuUCAU-GCaGG- -5'
16303 3' -54.2 NC_004084.1 + 1188 0.66 0.805596
Target:  5'- gCGGUCGUGGACGUagucGcGUAAGcggucgaaGUCCu -3'
miRNA:   3'- -GCCGGUACCUGCG----C-CAUUCaug-----CAGG- -5'
16303 3' -54.2 NC_004084.1 + 12156 0.66 0.805596
Target:  5'- -aGCgAUGGAUGUcgcacacgaGGUcgcaGGGUACGUCCc -3'
miRNA:   3'- gcCGgUACCUGCG---------CCA----UUCAUGCAGG- -5'
16303 3' -54.2 NC_004084.1 + 23870 0.66 0.805596
Target:  5'- -cGCgAUGGACGCGGUGAucGCuUCa -3'
miRNA:   3'- gcCGgUACCUGCGCCAUUcaUGcAGg -5'
16303 3' -54.2 NC_004084.1 + 29695 0.66 0.796067
Target:  5'- gCGGUCGcGGACGCuguccuGGcUGAGUcGCGUCg -3'
miRNA:   3'- -GCCGGUaCCUGCG------CC-AUUCA-UGCAGg -5'
16303 3' -54.2 NC_004084.1 + 27323 0.66 0.796067
Target:  5'- uCGaCCGUucacguucgagGGACGCGGUGGGccggacgACGUCUc -3'
miRNA:   3'- -GCcGGUA-----------CCUGCGCCAUUCa------UGCAGG- -5'
16303 3' -54.2 NC_004084.1 + 22472 0.66 0.783429
Target:  5'- aCGGCUgcGUGGugGCGGcuccAGUucgggacguaguccACGUCg -3'
miRNA:   3'- -GCCGG--UACCugCGCCau--UCA--------------UGCAGg -5'
16303 3' -54.2 NC_004084.1 + 10241 0.67 0.746113
Target:  5'- aGGUCGccUGGugaguCGCGGUcg--GCGUCCg -3'
miRNA:   3'- gCCGGU--ACCu----GCGCCAuucaUGCAGG- -5'
16303 3' -54.2 NC_004084.1 + 32838 0.68 0.729463
Target:  5'- uGGCCAgauaGGucaccagugugaccgGCGUGGU--GUAUGUCCa -3'
miRNA:   3'- gCCGGUa---CC---------------UGCGCCAuuCAUGCAGG- -5'
16303 3' -54.2 NC_004084.1 + 217 0.69 0.671725
Target:  5'- aCGGCCAUcGGCGgGG-GAGU-CGUCg -3'
miRNA:   3'- -GCCGGUAcCUGCgCCaUUCAuGCAGg -5'
16303 3' -54.2 NC_004084.1 + 53008 0.69 0.617264
Target:  5'- aCGGCCAcgagaccuacUGGAUcgaGCGGaagAAGUccggcuggcacgGCGUCCg -3'
miRNA:   3'- -GCCGGU----------ACCUG---CGCCa--UUCA------------UGCAGG- -5'
16303 3' -54.2 NC_004084.1 + 28761 0.69 0.615084
Target:  5'- gGGCCAUGuaccagcuguccGCGCGGUcgucgACGUCCg -3'
miRNA:   3'- gCCGGUACc-----------UGCGCCAuuca-UGCAGG- -5'
16303 3' -54.2 NC_004084.1 + 23630 0.7 0.584662
Target:  5'- -cGCaAUGGACGCGGUGAGcgAC-UCCc -3'
miRNA:   3'- gcCGgUACCUGCGCCAUUCa-UGcAGG- -5'
16303 3' -54.2 NC_004084.1 + 39593 0.7 0.563107
Target:  5'- cCGcGCCAccguccuccUGGACGUGGccGGcgACGUCCu -3'
miRNA:   3'- -GC-CGGU---------ACCUGCGCCauUCa-UGCAGG- -5'
16303 3' -54.2 NC_004084.1 + 23445 0.72 0.449866
Target:  5'- gCGGCgAUGGAaGCGGUcAGUAuCGcCCg -3'
miRNA:   3'- -GCCGgUACCUgCGCCAuUCAU-GCaGG- -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.