miRNA display CGI


Results 1 - 20 of 26 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
27983 3' -62 NC_005886.2 + 27050 0.65 0.378922
Target:  5'- -aACGUgaaaagaaaGCCGCGUAgauguagaaacggcCCGCGCGauGCGGg -3'
miRNA:   3'- cgUGCG---------UGGCGCAU--------------GGCGCGC--CGCCa -5'
27983 3' -62 NC_005886.2 + 39761 0.66 0.372999
Target:  5'- uGCcCGUACUGCGgcgaaccugUGCCugcgccugaugcGCGUGGCGGa -3'
miRNA:   3'- -CGuGCGUGGCGC---------AUGG------------CGCGCCGCCa -5'
27983 3' -62 NC_005886.2 + 36234 0.66 0.348337
Target:  5'- gGCACgggcgGCAUCgGCGgcgGCaCGgGCGGCGGc -3'
miRNA:   3'- -CGUG-----CGUGG-CGCa--UG-GCgCGCCGCCa -5'
27983 3' -62 NC_005886.2 + 40243 0.66 0.340379
Target:  5'- uGCGCGCgGCUgGCGUACCuuCGaUGGUGGUa -3'
miRNA:   3'- -CGUGCG-UGG-CGCAUGGc-GC-GCCGCCA- -5'
27983 3' -62 NC_005886.2 + 24690 0.66 0.340379
Target:  5'- cGCuagaaGCcCCGCGU-CCGCGCGcaacGCGGc -3'
miRNA:   3'- -CGug---CGuGGCGCAuGGCGCGC----CGCCa -5'
27983 3' -62 NC_005886.2 + 1764 0.66 0.332553
Target:  5'- aGCACGCaagauucgcaaaGCCauagugGCGUAuggcCCGuUGCGGCGGg -3'
miRNA:   3'- -CGUGCG------------UGG------CGCAU----GGC-GCGCCGCCa -5'
27983 3' -62 NC_005886.2 + 25233 0.67 0.327922
Target:  5'- gGUACGCGuuuugcgauaacguuCCGCGUcacguuCCaGCGCGGCGa- -3'
miRNA:   3'- -CGUGCGU---------------GGCGCAu-----GG-CGCGCCGCca -5'
27983 3' -62 NC_005886.2 + 6808 0.67 0.32486
Target:  5'- uGCAauCGCGCUGCaucaaaCGgGCGGCGGa -3'
miRNA:   3'- -CGU--GCGUGGCGcaug--GCgCGCCGCCa -5'
27983 3' -62 NC_005886.2 + 23287 0.67 0.309874
Target:  5'- uGUACGCACCGCaacagACgaaGCGCGGUauuuuuGGUu -3'
miRNA:   3'- -CGUGCGUGGCGca---UGg--CGCGCCG------CCA- -5'
27983 3' -62 NC_005886.2 + 24668 0.67 0.295421
Target:  5'- cGCGCGcCAUCGaaGUAaaaCGCGCaGCGGUa -3'
miRNA:   3'- -CGUGC-GUGGCg-CAUg--GCGCGcCGCCA- -5'
27983 3' -62 NC_005886.2 + 34439 0.67 0.295421
Target:  5'- uCGCGCugCGaucacCGUGCCGUGCGuGaCGGc -3'
miRNA:   3'- cGUGCGugGC-----GCAUGGCGCGC-C-GCCa -5'
27983 3' -62 NC_005886.2 + 34546 0.67 0.295421
Target:  5'- uCACGCugCGCGU---GCGgGGUGGa -3'
miRNA:   3'- cGUGCGugGCGCAuggCGCgCCGCCa -5'
27983 3' -62 NC_005886.2 + 28712 0.67 0.288394
Target:  5'- cGCGuCGCACCGUucGUGCCauCGUGGCGu- -3'
miRNA:   3'- -CGU-GCGUGGCG--CAUGGc-GCGCCGCca -5'
27983 3' -62 NC_005886.2 + 29287 0.68 0.280134
Target:  5'- -aACGCGCCGUucgaugaagccGCUGCGCGuGCGGg -3'
miRNA:   3'- cgUGCGUGGCGca---------UGGCGCGC-CGCCa -5'
27983 3' -62 NC_005886.2 + 22141 0.68 0.2681
Target:  5'- -aACGCAUCGa--GCCGCGCGuCGGUa -3'
miRNA:   3'- cgUGCGUGGCgcaUGGCGCGCcGCCA- -5'
27983 3' -62 NC_005886.2 + 35702 0.68 0.261596
Target:  5'- cGC-CGCGCCGCaUAgCGCacGCGGCGa- -3'
miRNA:   3'- -CGuGCGUGGCGcAUgGCG--CGCCGCca -5'
27983 3' -62 NC_005886.2 + 21763 0.69 0.242856
Target:  5'- -uGCGCAUCGC--AUCGCGCGGCa-- -3'
miRNA:   3'- cgUGCGUGGCGcaUGGCGCGCCGcca -5'
27983 3' -62 NC_005886.2 + 38584 0.69 0.24225
Target:  5'- gGC-CGCGCCGCacuUGCUgauccaaGCGCGGcCGGUg -3'
miRNA:   3'- -CGuGCGUGGCGc--AUGG-------CGCGCC-GCCA- -5'
27983 3' -62 NC_005886.2 + 35625 0.69 0.213572
Target:  5'- aGUAUuCGCCGCGUgcgcuauGCgGCGCGGCGa- -3'
miRNA:   3'- -CGUGcGUGGCGCA-------UGgCGCGCCGCca -5'
27983 3' -62 NC_005886.2 + 23185 0.7 0.203462
Target:  5'- cGCACGUgaACgGCucGCCGuCGUGGCGGa -3'
miRNA:   3'- -CGUGCG--UGgCGcaUGGC-GCGCCGCCa -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.