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
31076 3' -60.5 NC_006560.1 + 64480 1.07 0.001392
Target:  5'- cAGCCGCUCCACCAGCUCCUCGUCCAGc -3'
miRNA:   3'- -UCGGCGAGGUGGUCGAGGAGCAGGUC- -5'
31076 3' -60.5 NC_006560.1 + 6447 0.77 0.186588
Target:  5'- cGCCGCcgCCGCCGGCccUCCUCGcUCCGc -3'
miRNA:   3'- uCGGCGa-GGUGGUCG--AGGAGC-AGGUc -5'
31076 3' -60.5 NC_006560.1 + 31236 0.75 0.248829
Target:  5'- cGCCGCUCCGCCccccGCUCCUcCG-CCGc -3'
miRNA:   3'- uCGGCGAGGUGGu---CGAGGA-GCaGGUc -5'
31076 3' -60.5 NC_006560.1 + 104926 0.74 0.266861
Target:  5'- gAGCCGCUCguCgGGCUCCccgggCGUCCGu -3'
miRNA:   3'- -UCGGCGAGguGgUCGAGGa----GCAGGUc -5'
31076 3' -60.5 NC_006560.1 + 78309 0.74 0.285935
Target:  5'- cGCC-CUCUACCGGC-CCUCGggCCAGc -3'
miRNA:   3'- uCGGcGAGGUGGUCGaGGAGCa-GGUC- -5'
31076 3' -60.5 NC_006560.1 + 110604 0.73 0.320084
Target:  5'- uGUCGCggCCGCuCGGCUCCcgCGUCCAc -3'
miRNA:   3'- uCGGCGa-GGUG-GUCGAGGa-GCAGGUc -5'
31076 3' -60.5 NC_006560.1 + 120216 0.73 0.320084
Target:  5'- cAGCCGCgcgcgCCACCugggguGGCUCCUgGcCCGGc -3'
miRNA:   3'- -UCGGCGa----GGUGG------UCGAGGAgCaGGUC- -5'
31076 3' -60.5 NC_006560.1 + 36887 0.72 0.341998
Target:  5'- cGCCGCgCCGCCAgacGCUCC-CGgcgCCGGg -3'
miRNA:   3'- uCGGCGaGGUGGU---CGAGGaGCa--GGUC- -5'
31076 3' -60.5 NC_006560.1 + 51534 0.72 0.380876
Target:  5'- cGCgCGCUCCugGCCGGCgcCCUCGugcUCCAGc -3'
miRNA:   3'- uCG-GCGAGG--UGGUCGa-GGAGC---AGGUC- -5'
31076 3' -60.5 NC_006560.1 + 105238 0.71 0.388997
Target:  5'- cGCgGCUgCCGCUggGGCUCCUCGcUCCGc -3'
miRNA:   3'- uCGgCGA-GGUGG--UCGAGGAGC-AGGUc -5'
31076 3' -60.5 NC_006560.1 + 77956 0.71 0.388997
Target:  5'- gGGCCGCccccggCCACCGGcCUCCU-GUUCGGc -3'
miRNA:   3'- -UCGGCGa-----GGUGGUC-GAGGAgCAGGUC- -5'
31076 3' -60.5 NC_006560.1 + 41784 0.71 0.414033
Target:  5'- cGcCCGCa-CGCCAGCcCCUCGUCCGu -3'
miRNA:   3'- uC-GGCGagGUGGUCGaGGAGCAGGUc -5'
31076 3' -60.5 NC_006560.1 + 11924 0.71 0.414033
Target:  5'- aAGCCGCgggCCcgcaggagggGCCGGCgggCCagGUCCAGg -3'
miRNA:   3'- -UCGGCGa--GG----------UGGUCGa--GGagCAGGUC- -5'
31076 3' -60.5 NC_006560.1 + 12648 0.71 0.431264
Target:  5'- cGGCCGCcccggCCACCAGCcCCgCG-CCGGc -3'
miRNA:   3'- -UCGGCGa----GGUGGUCGaGGaGCaGGUC- -5'
31076 3' -60.5 NC_006560.1 + 81576 0.71 0.431264
Target:  5'- cGCCGCgugCgGCCGGCgUCCUCGggccCCAu -3'
miRNA:   3'- uCGGCGa--GgUGGUCG-AGGAGCa---GGUc -5'
31076 3' -60.5 NC_006560.1 + 1904 0.71 0.43476
Target:  5'- cGCCgGCUaccaguccucggcggCCGCCGGCUCgC-CGUCCGGg -3'
miRNA:   3'- uCGG-CGA---------------GGUGGUCGAG-GaGCAGGUC- -5'
31076 3' -60.5 NC_006560.1 + 48839 0.7 0.439154
Target:  5'- cAGCCGCUCCuguucguGCaCGGCgCCaucagCGUCCGGg -3'
miRNA:   3'- -UCGGCGAGG-------UG-GUCGaGGa----GCAGGUC- -5'
31076 3' -60.5 NC_006560.1 + 79506 0.7 0.440035
Target:  5'- cGCCGCgCCGCCcggcccaccgucGGCUcCCUCG-CCAGc -3'
miRNA:   3'- uCGGCGaGGUGG------------UCGA-GGAGCaGGUC- -5'
31076 3' -60.5 NC_006560.1 + 5062 0.7 0.448908
Target:  5'- cGCgaGCUCCGCgAGCUCgUCG-CCGGc -3'
miRNA:   3'- uCGg-CGAGGUGgUCGAGgAGCaGGUC- -5'
31076 3' -60.5 NC_006560.1 + 17189 0.7 0.448908
Target:  5'- aGGCCGC-CCACCgGGCgCa-CGUCCAGg -3'
miRNA:   3'- -UCGGCGaGGUGG-UCGaGgaGCAGGUC- -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.