miRNA display CGI


Results 1 - 20 of 49 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
31004 5' -60.5 NC_006560.1 + 106582 0.66 0.727574
Target:  5'- gGGCCGgGGCCUGGC-Cg---CCCCGGu -3'
miRNA:   3'- -CUGGCaCCGGGUCGaGaugaGGGGCU- -5'
31004 5' -60.5 NC_006560.1 + 129049 0.66 0.727574
Target:  5'- -uCCG-GGCCCAGCggcccCUCCgCGAg -3'
miRNA:   3'- cuGGCaCCGGGUCGagau-GAGGgGCU- -5'
31004 5' -60.5 NC_006560.1 + 113825 0.66 0.727574
Target:  5'- -cCCGUGGCgcuguaccaCCAGCUgcggacgggcCUGCaCCCCGGg -3'
miRNA:   3'- cuGGCACCG---------GGUCGA----------GAUGaGGGGCU- -5'
31004 5' -60.5 NC_006560.1 + 105659 0.66 0.727574
Target:  5'- cGACCG-GGaCCCcggGGC-CUACUCCguCCGGg -3'
miRNA:   3'- -CUGGCaCC-GGG---UCGaGAUGAGG--GGCU- -5'
31004 5' -60.5 NC_006560.1 + 68030 0.66 0.717938
Target:  5'- -cCCGacGGCCCgcugcaGGCUCUGCUgcgggCCCUGAc -3'
miRNA:   3'- cuGGCa-CCGGG------UCGAGAUGA-----GGGGCU- -5'
31004 5' -60.5 NC_006560.1 + 39803 0.66 0.708232
Target:  5'- aGGCC--GGCCCgGGCUCcGCgUCCUCGAa -3'
miRNA:   3'- -CUGGcaCCGGG-UCGAGaUG-AGGGGCU- -5'
31004 5' -60.5 NC_006560.1 + 70722 0.66 0.708232
Target:  5'- cGGCgCGUGGCCgAGUUCguccgggaGCUCCaCGAc -3'
miRNA:   3'- -CUG-GCACCGGgUCGAGa-------UGAGGgGCU- -5'
31004 5' -60.5 NC_006560.1 + 71490 0.66 0.702379
Target:  5'- gGAUCGUGGUcaccggggcgaggaaCCAGUUC-GC-CCCCGAc -3'
miRNA:   3'- -CUGGCACCG---------------GGUCGAGaUGaGGGGCU- -5'
31004 5' -60.5 NC_006560.1 + 61204 0.66 0.698465
Target:  5'- cGACCGU-GCCC-GCUC--CUCCCCc- -3'
miRNA:   3'- -CUGGCAcCGGGuCGAGauGAGGGGcu -5'
31004 5' -60.5 NC_006560.1 + 139185 0.66 0.688646
Target:  5'- uGCCGccGGCCCAGCUCg--UCCaCgGAg -3'
miRNA:   3'- cUGGCa-CCGGGUCGAGaugAGG-GgCU- -5'
31004 5' -60.5 NC_006560.1 + 142691 0.66 0.678782
Target:  5'- gGACCGgaggggGcGCCCGGCcggCcGCggCCCCGAg -3'
miRNA:   3'- -CUGGCa-----C-CGGGUCGa--GaUGa-GGGGCU- -5'
31004 5' -60.5 NC_006560.1 + 31190 0.66 0.678782
Target:  5'- cGCCGgcccGCCCGGCgCaGCUCCCCc- -3'
miRNA:   3'- cUGGCac--CGGGUCGaGaUGAGGGGcu -5'
31004 5' -60.5 NC_006560.1 + 144879 0.66 0.676804
Target:  5'- --gCGUGGCCCugAGCgcccauguuCUCCCCGGc -3'
miRNA:   3'- cugGCACCGGG--UCGagau-----GAGGGGCU- -5'
31004 5' -60.5 NC_006560.1 + 104214 0.67 0.668881
Target:  5'- cGGCCGUgcugucguucgcGGCCCuGCU--GC-CCCCGAc -3'
miRNA:   3'- -CUGGCA------------CCGGGuCGAgaUGaGGGGCU- -5'
31004 5' -60.5 NC_006560.1 + 45898 0.67 0.668881
Target:  5'- cACCGggGGCgaCCGGCggguCUCCCCGGg -3'
miRNA:   3'- cUGGCa-CCG--GGUCGagauGAGGGGCU- -5'
31004 5' -60.5 NC_006560.1 + 47480 0.67 0.658952
Target:  5'- uGGCaGcGGCCCAGCUCUGggacCUCuCCCa- -3'
miRNA:   3'- -CUGgCaCCGGGUCGAGAU----GAG-GGGcu -5'
31004 5' -60.5 NC_006560.1 + 52599 0.67 0.649003
Target:  5'- aGGCgGUGGCgaCgGGCgggCUGCggaUCCCCGAg -3'
miRNA:   3'- -CUGgCACCG--GgUCGa--GAUG---AGGGGCU- -5'
31004 5' -60.5 NC_006560.1 + 69120 0.67 0.649003
Target:  5'- cGCCG-GcGCCCAGCggcgcCUGCUCgCCCu- -3'
miRNA:   3'- cUGGCaC-CGGGUCGa----GAUGAG-GGGcu -5'
31004 5' -60.5 NC_006560.1 + 115878 0.67 0.649003
Target:  5'- -cCCGUGGCCCGGgUgUGCacguucgacggCCCCGc -3'
miRNA:   3'- cuGGCACCGGGUCgAgAUGa----------GGGGCu -5'
31004 5' -60.5 NC_006560.1 + 73175 0.67 0.633061
Target:  5'- cGCCGgcgcgggggcggagGGCCCGGcCUCggccCUCCUCGAc -3'
miRNA:   3'- cUGGCa-------------CCGGGUC-GAGau--GAGGGGCU- -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.