miRNA display CGI


Results 1 - 20 of 44 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
23408 3' -55.1 NC_005259.1 + 47945 0.66 0.818053
Target:  5'- cCGAUGACGgcGGuGCCgauGGCCgccgCGCCGc -3'
miRNA:   3'- -GCUGCUGU--UCuUGGag-UCGGa---GCGGC- -5'
23408 3' -55.1 NC_005259.1 + 58490 0.66 0.808879
Target:  5'- cCGACGACAucGACCUCgcGGUCUaggGUCGa -3'
miRNA:   3'- -GCUGCUGUucUUGGAG--UCGGAg--CGGC- -5'
23408 3' -55.1 NC_005259.1 + 28941 0.66 0.808879
Target:  5'- aGGCGGCAcGAuCCUgcGCCgcaUCGCCGa -3'
miRNA:   3'- gCUGCUGUuCUuGGAguCGG---AGCGGC- -5'
23408 3' -55.1 NC_005259.1 + 5569 0.66 0.808879
Target:  5'- uGACGGCGAG-ACCgu-GCCgUGCUGg -3'
miRNA:   3'- gCUGCUGUUCuUGGaguCGGaGCGGC- -5'
23408 3' -55.1 NC_005259.1 + 46675 0.66 0.799528
Target:  5'- --uCGGCGAGcucGGCCUgAGCCgcCGCCGc -3'
miRNA:   3'- gcuGCUGUUC---UUGGAgUCGGa-GCGGC- -5'
23408 3' -55.1 NC_005259.1 + 8994 0.66 0.799528
Target:  5'- gCGGCGACGGcAGCC---GCCUCGUCa -3'
miRNA:   3'- -GCUGCUGUUcUUGGaguCGGAGCGGc -5'
23408 3' -55.1 NC_005259.1 + 20148 0.66 0.795739
Target:  5'- uGACGGCAGccggugcccuGGccaccgcgcccgccGCCUCGGCUgacgagaUCGCCGg -3'
miRNA:   3'- gCUGCUGUU----------CU--------------UGGAGUCGG-------AGCGGC- -5'
23408 3' -55.1 NC_005259.1 + 37176 0.66 0.790008
Target:  5'- cCGACGccgcGCGAGGACgagcugCGGcCCUUGCCGc -3'
miRNA:   3'- -GCUGC----UGUUCUUGga----GUC-GGAGCGGC- -5'
23408 3' -55.1 NC_005259.1 + 64172 0.66 0.780331
Target:  5'- uCGGCGACugucugugcgucGGGAucuuCCUCGaugucGaCCUCGCCGg -3'
miRNA:   3'- -GCUGCUG------------UUCUu---GGAGU-----C-GGAGCGGC- -5'
23408 3' -55.1 NC_005259.1 + 9569 0.67 0.760545
Target:  5'- gCGuCGGCGAGGugCUCgucaacgucgucGGUCUgGCCGu -3'
miRNA:   3'- -GCuGCUGUUCUugGAG------------UCGGAgCGGC- -5'
23408 3' -55.1 NC_005259.1 + 37522 0.67 0.760545
Target:  5'- cCGACGAgAAGAuCgUCGGgC-CGCCGu -3'
miRNA:   3'- -GCUGCUgUUCUuGgAGUCgGaGCGGC- -5'
23408 3' -55.1 NC_005259.1 + 12163 0.67 0.750458
Target:  5'- cCGACGGCAccgcCCUCGGUCgaaccUGCCGg -3'
miRNA:   3'- -GCUGCUGUucuuGGAGUCGGa----GCGGC- -5'
23408 3' -55.1 NC_005259.1 + 38165 0.67 0.750458
Target:  5'- cCGAUGACGGuGAUCgguGCCUCGUCGc -3'
miRNA:   3'- -GCUGCUGUUcUUGGaguCGGAGCGGC- -5'
23408 3' -55.1 NC_005259.1 + 61167 0.67 0.729948
Target:  5'- cCGACGGuguacGCCUCGGuauggcCCUCGCCGg -3'
miRNA:   3'- -GCUGCUguucuUGGAGUC------GGAGCGGC- -5'
23408 3' -55.1 NC_005259.1 + 29047 0.67 0.719547
Target:  5'- -aACGACGAGAGCCgcgagcgcgguaUCGGCCcgaucugCGCUGc -3'
miRNA:   3'- gcUGCUGUUCUUGG------------AGUCGGa------GCGGC- -5'
23408 3' -55.1 NC_005259.1 + 18488 0.67 0.718502
Target:  5'- aCGcCGACGAGcuacgccgacGACCUCAgcgaucuGCC-CGCCGa -3'
miRNA:   3'- -GCuGCUGUUC----------UUGGAGU-------CGGaGCGGC- -5'
23408 3' -55.1 NC_005259.1 + 54701 0.67 0.715363
Target:  5'- uCGA-GGCGGGuGGCCUCAGCCUgguacaggacauaGCCGa -3'
miRNA:   3'- -GCUgCUGUUC-UUGGAGUCGGAg------------CGGC- -5'
23408 3' -55.1 NC_005259.1 + 31906 0.68 0.709063
Target:  5'- cCGGCG-CGAGcGCCUCAaUCUCGUCa -3'
miRNA:   3'- -GCUGCuGUUCuUGGAGUcGGAGCGGc -5'
23408 3' -55.1 NC_005259.1 + 29658 0.68 0.698507
Target:  5'- aGACGaAUggGAccGCCUCGuuGCCggacgCGCCGc -3'
miRNA:   3'- gCUGC-UGuuCU--UGGAGU--CGGa----GCGGC- -5'
23408 3' -55.1 NC_005259.1 + 16712 0.68 0.687888
Target:  5'- cCGcCGAgCAGGucGCgCUCuGCCUCGCCa -3'
miRNA:   3'- -GCuGCU-GUUCu-UG-GAGuCGGAGCGGc -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.