miRNA display CGI


Results 1 - 20 of 39 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
23879 3' -57.7 NC_005262.1 + 57445 0.66 0.709903
Target:  5'- aCCGUcCGcGGAUgcCGcGG-CGGCGACGa -3'
miRNA:   3'- -GGCGaGCaCCUA--GCuCCuGCCGCUGC- -5'
23879 3' -57.7 NC_005262.1 + 34990 0.66 0.699638
Target:  5'- -aGCUCGagaugcgcgGGcgCGAGGucACGGuCGACGu -3'
miRNA:   3'- ggCGAGCa--------CCuaGCUCC--UGCC-GCUGC- -5'
23879 3' -57.7 NC_005262.1 + 9731 0.66 0.699638
Target:  5'- aCGCgUCGUcaaggcgagcGGAuacgUCGAGGAgaaauuCGGCGGCa -3'
miRNA:   3'- gGCG-AGCA----------CCU----AGCUCCU------GCCGCUGc -5'
23879 3' -57.7 NC_005262.1 + 25385 0.66 0.699638
Target:  5'- aUCGCgca-GGAUCGGGaGACGGCcgaGGCGc -3'
miRNA:   3'- -GGCGagcaCCUAGCUC-CUGCCG---CUGC- -5'
23879 3' -57.7 NC_005262.1 + 36747 0.66 0.699638
Target:  5'- aCGCguagcgCGUGaGGUCGAuGGCGG-GGCGg -3'
miRNA:   3'- gGCGa-----GCAC-CUAGCUcCUGCCgCUGC- -5'
23879 3' -57.7 NC_005262.1 + 56708 0.66 0.689313
Target:  5'- gCGCUCGcUGGAggacgugucCGAGGcguCGGCGuuCGa -3'
miRNA:   3'- gGCGAGC-ACCUa--------GCUCCu--GCCGCu-GC- -5'
23879 3' -57.7 NC_005262.1 + 22268 0.66 0.668523
Target:  5'- gCGCaugCGUcGGAUC-AGuGACGGUGugGg -3'
miRNA:   3'- gGCGa--GCA-CCUAGcUC-CUGCCGCugC- -5'
23879 3' -57.7 NC_005262.1 + 27391 0.67 0.647609
Target:  5'- uCCGCgaaCGUGGAcuUCGGcGACgGGCGaACGc -3'
miRNA:   3'- -GGCGa--GCACCU--AGCUcCUG-CCGC-UGC- -5'
23879 3' -57.7 NC_005262.1 + 42233 0.67 0.647609
Target:  5'- cCCGCUCGcGGuuccgaugcCGAGcGccgcgcucacuGCGGCGACGa -3'
miRNA:   3'- -GGCGAGCaCCua-------GCUC-C-----------UGCCGCUGC- -5'
23879 3' -57.7 NC_005262.1 + 7625 0.67 0.647609
Target:  5'- aCCGgaCGuUGGccgaauGUCGAcgccGGCGGCGACGg -3'
miRNA:   3'- -GGCgaGC-ACC------UAGCUc---CUGCCGCUGC- -5'
23879 3' -57.7 NC_005262.1 + 45758 0.67 0.637128
Target:  5'- cCCGCgaacgCGacgccGAUCGgcaucgcggcgaAGGGCGGCGGCGu -3'
miRNA:   3'- -GGCGa----GCac---CUAGC------------UCCUGCCGCUGC- -5'
23879 3' -57.7 NC_005262.1 + 45685 0.67 0.637128
Target:  5'- gCCGCacuUCGUGcGcAUCGAGGGcCGGCaGCc -3'
miRNA:   3'- -GGCG---AGCAC-C-UAGCUCCU-GCCGcUGc -5'
23879 3' -57.7 NC_005262.1 + 57274 0.67 0.637128
Target:  5'- uCCGCgagCGUGacggCGAGGuCGGCG-CGc -3'
miRNA:   3'- -GGCGa--GCACcua-GCUCCuGCCGCuGC- -5'
23879 3' -57.7 NC_005262.1 + 45972 0.67 0.637128
Target:  5'- cCCGCUCGaGGGUUG-GGACGacaGCcGCGu -3'
miRNA:   3'- -GGCGAGCaCCUAGCuCCUGC---CGcUGC- -5'
23879 3' -57.7 NC_005262.1 + 27070 0.67 0.626643
Target:  5'- gCGUUCGUGcg-CGAGcuCGGCGACa -3'
miRNA:   3'- gGCGAGCACcuaGCUCcuGCCGCUGc -5'
23879 3' -57.7 NC_005262.1 + 33562 0.67 0.626643
Target:  5'- gUGCUCGacGAgcUCGAGGcCGGCGAg- -3'
miRNA:   3'- gGCGAGCacCU--AGCUCCuGCCGCUgc -5'
23879 3' -57.7 NC_005262.1 + 35706 0.67 0.626643
Target:  5'- uCCGCUCc-GGcGUCGgcGGGACGGCcACGc -3'
miRNA:   3'- -GGCGAGcaCC-UAGC--UCCUGCCGcUGC- -5'
23879 3' -57.7 NC_005262.1 + 41510 0.67 0.626643
Target:  5'- gCCaGCUCG-GGccacucucugCGGGGACguauGGCGACGg -3'
miRNA:   3'- -GG-CGAGCaCCua--------GCUCCUG----CCGCUGC- -5'
23879 3' -57.7 NC_005262.1 + 17232 0.67 0.616163
Target:  5'- gUCGUggucgUCGUGGGcgUCGcGGGAgCGGCGGCc -3'
miRNA:   3'- -GGCG-----AGCACCU--AGC-UCCU-GCCGCUGc -5'
23879 3' -57.7 NC_005262.1 + 60692 0.67 0.616163
Target:  5'- aCGCUgGgcuucuucgcgGGcgcGUCGGGGAUGGaCGACGa -3'
miRNA:   3'- gGCGAgCa----------CC---UAGCUCCUGCC-GCUGC- -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.