miRNA display CGI


Results 1 - 20 of 23 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
13249 3' -54 NC_003401.1 + 51772 0.66 0.945832
Target:  5'- gUCCCcgAGAcGAGCGAU-GGC-UGCGCg -3'
miRNA:   3'- -AGGGa-UCU-CUCGUUAgCUGcACGCGg -5'
13249 3' -54 NC_003401.1 + 13886 0.66 0.940764
Target:  5'- aUCCUgauGGGGGCcugggCGAUggcguugGUGCGCCg -3'
miRNA:   3'- -AGGGau-CUCUCGuua--GCUG-------CACGCGG- -5'
13249 3' -54 NC_003401.1 + 15016 0.66 0.936396
Target:  5'- --aCUGGAGAgGCGggAUUucCGUGCGCCa -3'
miRNA:   3'- aggGAUCUCU-CGU--UAGcuGCACGCGG- -5'
13249 3' -54 NC_003401.1 + 92493 0.67 0.931309
Target:  5'- aCgCUGGAGAGCAcgCuaagGACGgGgGCCc -3'
miRNA:   3'- aGgGAUCUCUCGUuaG----CUGCaCgCGG- -5'
13249 3' -54 NC_003401.1 + 96689 0.67 0.928138
Target:  5'- -gUCUGGGGGGCAgaGUCcGCGUccauccuagacagucGCGCCa -3'
miRNA:   3'- agGGAUCUCUCGU--UAGcUGCA---------------CGCGG- -5'
13249 3' -54 NC_003401.1 + 89110 0.67 0.925974
Target:  5'- gUCCCUGcc-AGCccuaCGGCGUGUGCCc -3'
miRNA:   3'- -AGGGAUcucUCGuua-GCUGCACGCGG- -5'
13249 3' -54 NC_003401.1 + 19309 0.67 0.925974
Target:  5'- uUCCCaGGuAGAcGguGUUGACG-GCGCUg -3'
miRNA:   3'- -AGGGaUC-UCU-CguUAGCUGCaCGCGG- -5'
13249 3' -54 NC_003401.1 + 114365 0.67 0.922654
Target:  5'- gUCCCguguugugauuuggGGAGGGCGGUCaGCGcGCGUUc -3'
miRNA:   3'- -AGGGa-------------UCUCUCGUUAGcUGCaCGCGG- -5'
13249 3' -54 NC_003401.1 + 127693 0.67 0.914561
Target:  5'- gCCCUGGucucGCGGggCGGCcUGCGCCu -3'
miRNA:   3'- aGGGAUCucu-CGUUa-GCUGcACGCGG- -5'
13249 3' -54 NC_003401.1 + 119796 0.67 0.914561
Target:  5'- gCUCUaguguagguagaAGAGGGU-GUCGGCGaGCGCCg -3'
miRNA:   3'- aGGGA------------UCUCUCGuUAGCUGCaCGCGG- -5'
13249 3' -54 NC_003401.1 + 88698 0.67 0.908485
Target:  5'- aUCCaCUGaGGAGaaccuGUCGGCGccgGCGCCu -3'
miRNA:   3'- -AGG-GAUcUCUCgu---UAGCUGCa--CGCGG- -5'
13249 3' -54 NC_003401.1 + 93120 0.68 0.895602
Target:  5'- gUCCCUGGAGAuGUAGUCGuua---GCCa -3'
miRNA:   3'- -AGGGAUCUCU-CGUUAGCugcacgCGG- -5'
13249 3' -54 NC_003401.1 + 20418 0.68 0.870035
Target:  5'- gCCCacugggGGAGAacguuaauuccagcgGCAGUCGGgGgagGCGCCa -3'
miRNA:   3'- aGGGa-----UCUCU---------------CGUUAGCUgCa--CGCGG- -5'
13249 3' -54 NC_003401.1 + 11047 0.68 0.867012
Target:  5'- cUCCC-AGGGaAGCg--CGACGaaGCGCCg -3'
miRNA:   3'- -AGGGaUCUC-UCGuuaGCUGCa-CGCGG- -5'
13249 3' -54 NC_003401.1 + 82553 0.69 0.834929
Target:  5'- -aUCUAcGGGGGCGGUUGcgguccuguCGUGCGCCa -3'
miRNA:   3'- agGGAU-CUCUCGUUAGCu--------GCACGCGG- -5'
13249 3' -54 NC_003401.1 + 132673 0.69 0.826412
Target:  5'- gCCC-GGGGGGC-GUCGggGCGcgGCGCCg -3'
miRNA:   3'- aGGGaUCUCUCGuUAGC--UGCa-CGCGG- -5'
13249 3' -54 NC_003401.1 + 27186 0.7 0.817712
Target:  5'- gUCCCcgcAGAGAGCGguaAUCGGUGUGgCGCa -3'
miRNA:   3'- -AGGGa--UCUCUCGU---UAGCUGCAC-GCGg -5'
13249 3' -54 NC_003401.1 + 13034 0.7 0.785006
Target:  5'- gCCCUGGAGAGCuccuccagcaccuuGUUGAUGcucGCGCg -3'
miRNA:   3'- aGGGAUCUCUCGu-------------UAGCUGCa--CGCGg -5'
13249 3' -54 NC_003401.1 + 12675 0.7 0.78125
Target:  5'- aCCUgGGAGAGCGGg-GACGUGaagguCGCCg -3'
miRNA:   3'- aGGGaUCUCUCGUUagCUGCAC-----GCGG- -5'
13249 3' -54 NC_003401.1 + 108318 0.7 0.78125
Target:  5'- cUCCCUGGuuAGC-GUCGuCGUGC-CCu -3'
miRNA:   3'- -AGGGAUCucUCGuUAGCuGCACGcGG- -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.