miRNA display CGI


Results 1 - 20 of 22 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
14632 5' -59.1 NC_003521.1 + 204672 0.66 0.886514
Target:  5'- gGGuGUCCUCCUCcucgggcaggGUCgaCGAGGgcagcgAGGUGa -3'
miRNA:   3'- gCCuCAGGAGGAG----------CAG--GCUCC------UCCAC- -5'
14632 5' -59.1 NC_003521.1 + 17219 0.66 0.886514
Target:  5'- aCGGAGgCCgaggUCUCGgaggCCGAGGuGGa- -3'
miRNA:   3'- -GCCUCaGGa---GGAGCa---GGCUCCuCCac -5'
14632 5' -59.1 NC_003521.1 + 164851 0.66 0.886514
Target:  5'- gCGaGGGcCgCUCCUCGUCgGGGGuguguaacuacgAGGUGg -3'
miRNA:   3'- -GC-CUCaG-GAGGAGCAGgCUCC------------UCCAC- -5'
14632 5' -59.1 NC_003521.1 + 124421 0.67 0.859131
Target:  5'- cCGcGAGaUCUCCUCGUCCGGcGAGacGUGg -3'
miRNA:   3'- -GC-CUCaGGAGGAGCAGGCUcCUC--CAC- -5'
14632 5' -59.1 NC_003521.1 + 205439 0.67 0.86626
Target:  5'- gCGGcccgCgUCCUCG-CCGAGGGGGa- -3'
miRNA:   3'- -GCCuca-GgAGGAGCaGGCUCCUCCac -5'
14632 5' -59.1 NC_003521.1 + 7101 0.67 0.844333
Target:  5'- gCGGcGUCCUCCUUcuccaggCCGcuGAGGUGg -3'
miRNA:   3'- -GCCuCAGGAGGAGca-----GGCucCUCCAC- -5'
14632 5' -59.1 NC_003521.1 + 209712 0.67 0.873204
Target:  5'- aGGcg--CUCCagGUCCGAGGAGGUc -3'
miRNA:   3'- gCCucagGAGGagCAGGCUCCUCCAc -5'
14632 5' -59.1 NC_003521.1 + 39577 0.67 0.873204
Target:  5'- uCGGAGUCCUgCCggCGUCgGcGGuccugcccuGGGUGg -3'
miRNA:   3'- -GCCUCAGGA-GGa-GCAGgCuCC---------UCCAC- -5'
14632 5' -59.1 NC_003521.1 + 83721 0.67 0.859131
Target:  5'- aGGGGUCCagggCCUCGUgcuccuccucaCCGcGGGGGg- -3'
miRNA:   3'- gCCUCAGGa---GGAGCA-----------GGCuCCUCCac -5'
14632 5' -59.1 NC_003521.1 + 146458 0.67 0.85182
Target:  5'- -----aCCUCCUCGUCCGAgucggaccucgaGGAGGa- -3'
miRNA:   3'- gccucaGGAGGAGCAGGCU------------CCUCCac -5'
14632 5' -59.1 NC_003521.1 + 119295 0.67 0.844333
Target:  5'- aCGGAGUUCUCgCcCGUCCagguGAGGcggauGGUGa -3'
miRNA:   3'- -GCCUCAGGAG-GaGCAGG----CUCCu----CCAC- -5'
14632 5' -59.1 NC_003521.1 + 18241 0.67 0.844333
Target:  5'- aGGAGaUCUCCUCGggaCGAGcGGuGGUGg -3'
miRNA:   3'- gCCUCaGGAGGAGCag-GCUC-CU-CCAC- -5'
14632 5' -59.1 NC_003521.1 + 227769 0.67 0.836676
Target:  5'- uGGuucUCUUCCUCGUCgGAGGAGu-- -3'
miRNA:   3'- gCCuc-AGGAGGAGCAGgCUCCUCcac -5'
14632 5' -59.1 NC_003521.1 + 216212 0.68 0.787508
Target:  5'- gCGGGGUCCUCCUggcacacgcagaCGaggCCuacgagcGGGAGGUGg -3'
miRNA:   3'- -GCCUCAGGAGGA------------GCa--GGc------UCCUCCAC- -5'
14632 5' -59.1 NC_003521.1 + 73499 0.68 0.812743
Target:  5'- -cGAGcUCCUCCUCGaCCcgGAGGAuguGGUGg -3'
miRNA:   3'- gcCUC-AGGAGGAGCaGG--CUCCU---CCAC- -5'
14632 5' -59.1 NC_003521.1 + 117842 0.72 0.600673
Target:  5'- uCGcAGUCgUCCUCGUCCGAcGAGGa- -3'
miRNA:   3'- -GCcUCAGgAGGAGCAGGCUcCUCCac -5'
14632 5' -59.1 NC_003521.1 + 34071 0.73 0.543722
Target:  5'- uCGGGGUUgaCCUCGUgCaGGGAGGUGu -3'
miRNA:   3'- -GCCUCAGgaGGAGCAgGcUCCUCCAC- -5'
14632 5' -59.1 NC_003521.1 + 94353 0.73 0.534385
Target:  5'- uCGucGUCCUCCUCGaggUCCGAcucggacgaGGAGGUGu -3'
miRNA:   3'- -GCcuCAGGAGGAGC---AGGCU---------CCUCCAC- -5'
14632 5' -59.1 NC_003521.1 + 90903 0.75 0.427925
Target:  5'- aGGAGggcgcguuaUCgUCCUCGUCgGAGGAGGg- -3'
miRNA:   3'- gCCUC---------AGgAGGAGCAGgCUCCUCCac -5'
14632 5' -59.1 NC_003521.1 + 19916 0.75 0.419617
Target:  5'- uGGuGUUCUCCcUGUuucCCGAGGAGGUGg -3'
miRNA:   3'- gCCuCAGGAGGaGCA---GGCUCCUCCAC- -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.