miRNA display CGI


Results 1 - 20 of 47 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
23199 5' -57.4 NC_005259.1 + 3107 0.72 0.318027
Target:  5'- aGCGGGcg-GCCauuGCGCGGCACCgugGGCAg -3'
miRNA:   3'- -CGCUCuuaCGGc--UGUGCCGUGG---CCGU- -5'
23199 5' -57.4 NC_005259.1 + 4263 0.66 0.641371
Target:  5'- uGCGAGGAcaacgggcgGCUGcgcugccacgaGCACGG-ACCGGCGg -3'
miRNA:   3'- -CGCUCUUa--------CGGC-----------UGUGCCgUGGCCGU- -5'
23199 5' -57.4 NC_005259.1 + 4513 0.71 0.374288
Target:  5'- cCGGGAGUGgCGcuGCGCGGCAccCCGGUc -3'
miRNA:   3'- cGCUCUUACgGC--UGUGCCGU--GGCCGu -5'
23199 5' -57.4 NC_005259.1 + 6696 0.66 0.683846
Target:  5'- -aGAGug-GCgCGACACGaucaACCGGCAg -3'
miRNA:   3'- cgCUCuuaCG-GCUGUGCcg--UGGCCGU- -5'
23199 5' -57.4 NC_005259.1 + 8076 0.66 0.662662
Target:  5'- uCGAGAucGUGCCG-CGCuGGCgugACCGuGCGa -3'
miRNA:   3'- cGCUCU--UACGGCuGUG-CCG---UGGC-CGU- -5'
23199 5' -57.4 NC_005259.1 + 8222 0.69 0.505161
Target:  5'- aGCGAGcgugcgguGGUGCCGACACccuGCcuuACCGGUc -3'
miRNA:   3'- -CGCUC--------UUACGGCUGUGc--CG---UGGCCGu -5'
23199 5' -57.4 NC_005259.1 + 8636 0.71 0.357545
Target:  5'- gGCGAGAAUgGCgGGCACgaGGCugUGGUc -3'
miRNA:   3'- -CGCUCUUA-CGgCUGUG--CCGugGCCGu -5'
23199 5' -57.4 NC_005259.1 + 13448 0.79 0.113137
Target:  5'- gGCGuGAccGUCGGCGCGGCGCUGGUg -3'
miRNA:   3'- -CGCuCUuaCGGCUGUGCCGUGGCCGu -5'
23199 5' -57.4 NC_005259.1 + 13813 0.66 0.670092
Target:  5'- gGCGAGcaccacgugugcguGAUGaCCGACG-GGCAcauugcCCGGCGa -3'
miRNA:   3'- -CGCUC--------------UUAC-GGCUGUgCCGU------GGCCGU- -5'
23199 5' -57.4 NC_005259.1 + 17757 0.66 0.694373
Target:  5'- cGUGAGGccGCCG-CGCGccgggccgagcGCACCGaGCGu -3'
miRNA:   3'- -CGCUCUuaCGGCuGUGC-----------CGUGGC-CGU- -5'
23199 5' -57.4 NC_005259.1 + 21971 0.77 0.156342
Target:  5'- cGCGuGggUGUCGuucucccCAcCGGCACCGGCAa -3'
miRNA:   3'- -CGCuCuuACGGCu------GU-GCCGUGGCCGU- -5'
23199 5' -57.4 NC_005259.1 + 24083 0.66 0.66691
Target:  5'- cGCGAGAucaCCGGCAgGGCcaacgaaccgaugggACCGGgCGg -3'
miRNA:   3'- -CGCUCUuacGGCUGUgCCG---------------UGGCC-GU- -5'
23199 5' -57.4 NC_005259.1 + 26826 0.69 0.485161
Target:  5'- gGCGGuGGUGCCGGgGCGGUcuGCUcgGGCAg -3'
miRNA:   3'- -CGCUcUUACGGCUgUGCCG--UGG--CCGU- -5'
23199 5' -57.4 NC_005259.1 + 27365 0.75 0.230948
Target:  5'- uCGGGcuuGGUGcCCGGCACGGUgACCGGCGg -3'
miRNA:   3'- cGCUC---UUAC-GGCUGUGCCG-UGGCCGU- -5'
23199 5' -57.4 NC_005259.1 + 27997 0.68 0.515295
Target:  5'- gGUGcGggUGCCGGgGCGGgguCGCCGGgGu -3'
miRNA:   3'- -CGCuCuuACGGCUgUGCC---GUGGCCgU- -5'
23199 5' -57.4 NC_005259.1 + 28760 0.7 0.44635
Target:  5'- cGUGAGAucgucgccgGUGCCGACGaGGUacccGCCGGUc -3'
miRNA:   3'- -CGCUCU---------UACGGCUGUgCCG----UGGCCGu -5'
23199 5' -57.4 NC_005259.1 + 28967 0.66 0.662662
Target:  5'- cCGAGGucgGUGCCGAggcCGCGaGCGCCcGCu -3'
miRNA:   3'- cGCUCU---UACGGCU---GUGC-CGUGGcCGu -5'
23199 5' -57.4 NC_005259.1 + 29051 0.72 0.325661
Target:  5'- aCGAGA--GCCGcgaGCGCGGUAUCGGCc -3'
miRNA:   3'- cGCUCUuaCGGC---UGUGCCGUGGCCGu -5'
23199 5' -57.4 NC_005259.1 + 29933 0.68 0.556581
Target:  5'- cGCGuGGccGCC-ACGCGGC-CCGGUc -3'
miRNA:   3'- -CGCuCUuaCGGcUGUGCCGuGGCCGu -5'
23199 5' -57.4 NC_005259.1 + 30745 0.67 0.576534
Target:  5'- cUGAGAguucaugaacugcAUGCCGACGCcgguGGCACCGcuGCc -3'
miRNA:   3'- cGCUCU-------------UACGGCUGUG----CCGUGGC--CGu -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.