miRNA display CGI


Results 1 - 20 of 71 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
11405 3' -62.7 NC_003085.1 + 23197 0.67 0.293322
Target:  5'- gGCCaGGACccugugaaggcaGUGGCCGGgcUGCUCCAGa -3'
miRNA:   3'- gUGGgCCUG------------CGCCGGCU--GCGAGGUCc -5'
11405 3' -62.7 NC_003085.1 + 29101 0.69 0.23011
Target:  5'- uGCCCGGcgucaGCaGCGGCgacgCGGCGCggaaCCAGGc -3'
miRNA:   3'- gUGGGCC-----UG-CGCCG----GCUGCGa---GGUCC- -5'
11405 3' -62.7 NC_003085.1 + 25052 0.69 0.235876
Target:  5'- gACCCGGuguucgGCGCGGCCGA-GUUCaucuaccugaAGGg -3'
miRNA:   3'- gUGGGCC------UGCGCCGGCUgCGAGg---------UCC- -5'
11405 3' -62.7 NC_003085.1 + 9437 0.69 0.241762
Target:  5'- gACgCGGACGU-GCCGGCGCUCauGGa -3'
miRNA:   3'- gUGgGCCUGCGcCGGCUGCGAGguCC- -5'
11405 3' -62.7 NC_003085.1 + 2766 0.68 0.250207
Target:  5'- uCACCCGGGCGCGauguaauuuccucucGCCuGACGUcuucUCUAGcGg -3'
miRNA:   3'- -GUGGGCCUGCGC---------------CGG-CUGCG----AGGUC-C- -5'
11405 3' -62.7 NC_003085.1 + 6010 0.68 0.2539
Target:  5'- aCGgCUGGGCGCGGauguacgcCCgGACGCcgcgCCAGGa -3'
miRNA:   3'- -GUgGGCCUGCGCC--------GG-CUGCGa---GGUCC- -5'
11405 3' -62.7 NC_003085.1 + 33341 0.68 0.279674
Target:  5'- uCAUCCGGGCGU---CGAC-CUCCAGGa -3'
miRNA:   3'- -GUGGGCCUGCGccgGCUGcGAGGUCC- -5'
11405 3' -62.7 NC_003085.1 + 34344 0.68 0.279674
Target:  5'- gCACCCGccguuGAUGCGGaCCuccgGAgGCUCaCAGGg -3'
miRNA:   3'- -GUGGGC-----CUGCGCC-GG----CUgCGAG-GUCC- -5'
11405 3' -62.7 NC_003085.1 + 22773 0.67 0.289174
Target:  5'- cCGCCgCGGugGCgacggcagcggcaacGGCCGcuccCGC-CCAGGa -3'
miRNA:   3'- -GUGG-GCCugCG---------------CCGGCu---GCGaGGUCC- -5'
11405 3' -62.7 NC_003085.1 + 19533 0.69 0.224464
Target:  5'- aGCCCagcGGACGCGcGcCCGACGCggagaaCCuGGa -3'
miRNA:   3'- gUGGG---CCUGCGC-C-GGCUGCGa-----GGuCC- -5'
11405 3' -62.7 NC_003085.1 + 35972 0.69 0.224464
Target:  5'- uCGCguaGGGgGCcaGGCCGACGC-CCAGGa -3'
miRNA:   3'- -GUGgg-CCUgCG--CCGGCUGCGaGGUCC- -5'
11405 3' -62.7 NC_003085.1 + 26385 0.69 0.224464
Target:  5'- uGCUCGGGCcGCugagcgcccagGGCUGGCaguuGCUCCAGGu -3'
miRNA:   3'- gUGGGCCUG-CG-----------CCGGCUG----CGAGGUCC- -5'
11405 3' -62.7 NC_003085.1 + 11289 0.76 0.068554
Target:  5'- gGCCCGGcuucggaaGCGCGcGCUGGCGCUUguGGa -3'
miRNA:   3'- gUGGGCC--------UGCGC-CGGCUGCGAGguCC- -5'
11405 3' -62.7 NC_003085.1 + 12167 0.76 0.072403
Target:  5'- -gUCUGGA-GUGGCCGugGUUCCAGGu -3'
miRNA:   3'- guGGGCCUgCGCCGGCugCGAGGUCC- -5'
11405 3' -62.7 NC_003085.1 + 15259 0.72 0.130811
Target:  5'- gACCCGGAggcCGCGGCCGA-GCUCa--- -3'
miRNA:   3'- gUGGGCCU---GCGCCGGCUgCGAGgucc -5'
11405 3' -62.7 NC_003085.1 + 29740 0.72 0.130811
Target:  5'- uCGCCCaGGACGUGGCCGccgucGCGCcCCAc- -3'
miRNA:   3'- -GUGGG-CCUGCGCCGGC-----UGCGaGGUcc -5'
11405 3' -62.7 NC_003085.1 + 16953 0.71 0.161271
Target:  5'- aCACCUGGGaa-GGCUcuuccacgagauGACGCUCCGGGc -3'
miRNA:   3'- -GUGGGCCUgcgCCGG------------CUGCGAGGUCC- -5'
11405 3' -62.7 NC_003085.1 + 666 0.71 0.169829
Target:  5'- cCGCCCGGACGUcGCCGGCcaccugucccGCgUCCGGc -3'
miRNA:   3'- -GUGGGCCUGCGcCGGCUG----------CG-AGGUCc -5'
11405 3' -62.7 NC_003085.1 + 24858 0.7 0.196479
Target:  5'- uCGCCUGGGC-CGGCaaccucaccugcagCGGCGCccaguUCCAGGg -3'
miRNA:   3'- -GUGGGCCUGcGCCG--------------GCUGCG-----AGGUCC- -5'
11405 3' -62.7 NC_003085.1 + 3210 0.69 0.224464
Target:  5'- gGCCCGaugccgcaaGGCGauGCCGGCGCUaCCuGGg -3'
miRNA:   3'- gUGGGC---------CUGCgcCGGCUGCGA-GGuCC- -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.