miRNA display CGI


Results 1 - 20 of 80 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
26339 3' -61.9 NC_005345.2 + 32851 0.66 0.368067
Target:  5'- cGCcGCGGCGucGCCGCuC-UGCGCcgCCa -3'
miRNA:   3'- -CGaCGCCGU--CGGCGuGcACGCGa-GGc -5'
26339 3' -61.9 NC_005345.2 + 45569 0.66 0.368067
Target:  5'- aGCccgGCGGCAGCgGCcgggauCGUGuCGUuugCCGg -3'
miRNA:   3'- -CGa--CGCCGUCGgCGu-----GCAC-GCGa--GGC- -5'
26339 3' -61.9 NC_005345.2 + 18371 0.66 0.368067
Target:  5'- -gUGCGaCGGCgaggacgaacagCGCGCGgGUGCUCCGg -3'
miRNA:   3'- cgACGCcGUCG------------GCGUGCaCGCGAGGC- -5'
26339 3' -61.9 NC_005345.2 + 45885 0.66 0.365554
Target:  5'- aGCUGCgcacgggguaccucGGCAcgagcGCCGCGugcacaGUGCGCUgcCCGa -3'
miRNA:   3'- -CGACG--------------CCGU-----CGGCGUg-----CACGCGA--GGC- -5'
26339 3' -61.9 NC_005345.2 + 29873 0.66 0.362221
Target:  5'- gGCUGUGgacgcacGCGGCCGC-CGUcggcaucccgguccuGCGCgagCCGa -3'
miRNA:   3'- -CGACGC-------CGUCGGCGuGCA---------------CGCGa--GGC- -5'
26339 3' -61.9 NC_005345.2 + 33964 0.66 0.359736
Target:  5'- aGCUGCc-CGGCCGCGCGagcgGCGUcCCc -3'
miRNA:   3'- -CGACGccGUCGGCGUGCa---CGCGaGGc -5'
26339 3' -61.9 NC_005345.2 + 9154 0.66 0.359736
Target:  5'- gGUUGaCGGCgcgggugcacgGGCCGguCGUGUGCgagCUGa -3'
miRNA:   3'- -CGAC-GCCG-----------UCGGCguGCACGCGa--GGC- -5'
26339 3' -61.9 NC_005345.2 + 44061 0.66 0.359736
Target:  5'- cGCcGCGGCGGCCG-ACGagucggGCGagccgCCGg -3'
miRNA:   3'- -CGaCGCCGUCGGCgUGCa-----CGCga---GGC- -5'
26339 3' -61.9 NC_005345.2 + 41351 0.66 0.351538
Target:  5'- gGCgucCGGCGGCgGCGCa-GCGCUCgGc -3'
miRNA:   3'- -CGac-GCCGUCGgCGUGcaCGCGAGgC- -5'
26339 3' -61.9 NC_005345.2 + 24760 0.66 0.351538
Target:  5'- gGCUGUcGCAGCCcgaaGUGCGgGCGUcgUCCGa -3'
miRNA:   3'- -CGACGcCGUCGG----CGUGCaCGCG--AGGC- -5'
26339 3' -61.9 NC_005345.2 + 14814 0.66 0.351538
Target:  5'- --aGCGGCGGgCGCGgGUGUGgUCg- -3'
miRNA:   3'- cgaCGCCGUCgGCGUgCACGCgAGgc -5'
26339 3' -61.9 NC_005345.2 + 16977 0.66 0.351538
Target:  5'- cGCaGCGGCAGCaguGCcucgACGgGCGCcuUCCGc -3'
miRNA:   3'- -CGaCGCCGUCGg--CG----UGCaCGCG--AGGC- -5'
26339 3' -61.9 NC_005345.2 + 1497 0.66 0.349104
Target:  5'- aGCUGCGGCuGCCaGC-UGUGCauggagaaguacccGC-CCGa -3'
miRNA:   3'- -CGACGCCGuCGG-CGuGCACG--------------CGaGGC- -5'
26339 3' -61.9 NC_005345.2 + 40840 0.66 0.343473
Target:  5'- uGCUGCuGCGcGCCGcCAUG-GCGC-CCa -3'
miRNA:   3'- -CGACGcCGU-CGGC-GUGCaCGCGaGGc -5'
26339 3' -61.9 NC_005345.2 + 9690 0.66 0.343473
Target:  5'- gGCUGCaGGCcgaucagcgGGCCGcCGCGUGagcCGCgCCGc -3'
miRNA:   3'- -CGACG-CCG---------UCGGC-GUGCAC---GCGaGGC- -5'
26339 3' -61.9 NC_005345.2 + 477 0.66 0.343473
Target:  5'- uGgaGUGGUGGCCGCGgGUGCacgacCUUCGc -3'
miRNA:   3'- -CgaCGCCGUCGGCGUgCACGc----GAGGC- -5'
26339 3' -61.9 NC_005345.2 + 38428 0.66 0.343473
Target:  5'- uGCU-CGGCcGuCCGCACGgaUGCGUUgCCGu -3'
miRNA:   3'- -CGAcGCCGuC-GGCGUGC--ACGCGA-GGC- -5'
26339 3' -61.9 NC_005345.2 + 43975 0.66 0.341079
Target:  5'- aGCccgGCGGCucgcccgacucgucGGCCGcCGCGgcGCGUUCCu -3'
miRNA:   3'- -CGa--CGCCG--------------UCGGC-GUGCa-CGCGAGGc -5'
26339 3' -61.9 NC_005345.2 + 2778 0.66 0.335542
Target:  5'- gGCUGCucGCcGCCGCccuuCGUGagcCGCUCCa -3'
miRNA:   3'- -CGACGc-CGuCGGCGu---GCAC---GCGAGGc -5'
26339 3' -61.9 NC_005345.2 + 29950 0.66 0.335542
Target:  5'- uGCcGaCGGCGGCCGC--GUGCGUccacagCCGg -3'
miRNA:   3'- -CGaC-GCCGUCGGCGugCACGCGa-----GGC- -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.