miRNA display CGI


Results 1 - 20 of 33 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
11598 5' -54.4 NC_003085.1 + 37907 0.66 0.75185
Target:  5'- gGAcgGuGcGUUGGcgcaGGCCCCGGCGCUc -3'
miRNA:   3'- aCUaaCuCuUAGCC----CCGGGGUUGCGG- -5'
11598 5' -54.4 NC_003085.1 + 27640 0.66 0.741316
Target:  5'- cGAcUUGAuGAGcUCGGcGGCCuUgGGCGCCa -3'
miRNA:   3'- aCU-AACU-CUU-AGCC-CCGG-GgUUGCGG- -5'
11598 5' -54.4 NC_003085.1 + 24295 0.66 0.738133
Target:  5'- ----cGAGGcgCGGaugaaugucgccgaGGCCaCCAugGCCa -3'
miRNA:   3'- acuaaCUCUuaGCC--------------CCGG-GGUugCGG- -5'
11598 5' -54.4 NC_003085.1 + 32831 0.66 0.730669
Target:  5'- cGAcUGA---UUGGGGCCCgAgaggccgcGCGCCg -3'
miRNA:   3'- aCUaACUcuuAGCCCCGGGgU--------UGCGG- -5'
11598 5' -54.4 NC_003085.1 + 9062 0.66 0.709085
Target:  5'- gUGGUgaGGAGUUGGauGCCggCCAGCGCCa -3'
miRNA:   3'- -ACUAacUCUUAGCCc-CGG--GGUUGCGG- -5'
11598 5' -54.4 NC_003085.1 + 22628 0.66 0.709085
Target:  5'- ----aGGGAAgCaGGGCaCCCAggaGCGCCg -3'
miRNA:   3'- acuaaCUCUUaGcCCCG-GGGU---UGCGG- -5'
11598 5' -54.4 NC_003085.1 + 48568 0.66 0.709085
Target:  5'- gGGUUGGca--CGGGauGCCCCucgGACGCCa -3'
miRNA:   3'- aCUAACUcuuaGCCC--CGGGG---UUGCGG- -5'
11598 5' -54.4 NC_003085.1 + 13952 0.67 0.69817
Target:  5'- aGAagcgGAGcGUCGGacuGGCCCgaAGCGCCc -3'
miRNA:   3'- aCUaa--CUCuUAGCC---CCGGGg-UUGCGG- -5'
11598 5' -54.4 NC_003085.1 + 9663 0.67 0.68719
Target:  5'- aGAUUGGGAc----GGCCgCCAACGUCg -3'
miRNA:   3'- aCUAACUCUuagccCCGG-GGUUGCGG- -5'
11598 5' -54.4 NC_003085.1 + 19207 0.67 0.676157
Target:  5'- ---cUGGGGcggCGGGGgCUgGGCGCCg -3'
miRNA:   3'- acuaACUCUua-GCCCCgGGgUUGCGG- -5'
11598 5' -54.4 NC_003085.1 + 11818 0.67 0.676157
Target:  5'- ----------cCGGGuGCCCCGACGCUg -3'
miRNA:   3'- acuaacucuuaGCCC-CGGGGUUGCGG- -5'
11598 5' -54.4 NC_003085.1 + 4110 0.67 0.676157
Target:  5'- ---cUG-GAGUUGGGcGCCgcgcugggacuCCAGCGCCg -3'
miRNA:   3'- acuaACuCUUAGCCC-CGG-----------GGUUGCGG- -5'
11598 5' -54.4 NC_003085.1 + 42031 0.67 0.675051
Target:  5'- gGAUgGAGAcgCGcgucuucccgggaGGGCCCCAGucggacucgUGCCa -3'
miRNA:   3'- aCUAaCUCUuaGC-------------CCCGGGGUU---------GCGG- -5'
11598 5' -54.4 NC_003085.1 + 26650 0.67 0.66508
Target:  5'- -----cGGAGUCGGGGCCgU--CGCCu -3'
miRNA:   3'- acuaacUCUUAGCCCCGGgGuuGCGG- -5'
11598 5' -54.4 NC_003085.1 + 12224 0.67 0.653972
Target:  5'- ----aGGGA--UGGGGCUCCAAgGCUg -3'
miRNA:   3'- acuaaCUCUuaGCCCCGGGGUUgCGG- -5'
11598 5' -54.4 NC_003085.1 + 2140 0.68 0.642843
Target:  5'- ----cGAGGA-CGGcGGCCCC--CGCCu -3'
miRNA:   3'- acuaaCUCUUaGCC-CCGGGGuuGCGG- -5'
11598 5' -54.4 NC_003085.1 + 36161 0.68 0.642843
Target:  5'- gUGGUUGaAGGGcucgcUGGGGCCuCCGAuguuCGCCg -3'
miRNA:   3'- -ACUAAC-UCUUa----GCCCCGG-GGUU----GCGG- -5'
11598 5' -54.4 NC_003085.1 + 15336 0.68 0.618339
Target:  5'- cGAUUGcaaccauacuGGuaacugcaugCGGuGGCCCUGACGCCa -3'
miRNA:   3'- aCUAAC----------UCuua-------GCC-CCGGGGUUGCGG- -5'
11598 5' -54.4 NC_003085.1 + 36841 0.68 0.609438
Target:  5'- aGAUUGucAGAAUccagcgccCGGGGCgCCAcgcGCGUCa -3'
miRNA:   3'- aCUAAC--UCUUA--------GCCCCGgGGU---UGCGG- -5'
11598 5' -54.4 NC_003085.1 + 11513 0.68 0.608326
Target:  5'- aGAU--GGcGUUGGGGCCCCGAUucucaaucaacagGCCc -3'
miRNA:   3'- aCUAacUCuUAGCCCCGGGGUUG-------------CGG- -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.