miRNA display CGI


Results 1 - 20 of 42 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
33115 3' -61.3 NC_007497.1 + 17572 0.66 0.362537
Target:  5'- cGCgCGCCGAGGugACGGaUACCgaGCCGc- -3'
miRNA:   3'- aCG-GUGGCUCC--UGCC-GUGGg-CGGUuc -5'
33115 3' -61.3 NC_007497.1 + 13614 0.67 0.307129
Target:  5'- gGCCACUGAGGAaGaGCgGgCCGCCGc- -3'
miRNA:   3'- aCGGUGGCUCCUgC-CG-UgGGCGGUuc -5'
33115 3' -61.3 NC_007497.1 + 44297 0.67 0.322273
Target:  5'- uUGCCGCCGuuGGcgaucaaccGCGGCGgugCCGCCGGa -3'
miRNA:   3'- -ACGGUGGCu-CC---------UGCCGUg--GGCGGUUc -5'
33115 3' -61.3 NC_007497.1 + 13887 0.66 0.330052
Target:  5'- gGCCGCCGcagGGGACGccGCAUgggUCGCCGcAGg -3'
miRNA:   3'- aCGGUGGC---UCCUGC--CGUG---GGCGGU-UC- -5'
33115 3' -61.3 NC_007497.1 + 23481 0.66 0.330052
Target:  5'- cGCgCGCUGAucaGGugcacgacgcCGGCGCCCGCCGc- -3'
miRNA:   3'- aCG-GUGGCU---CCu---------GCCGUGGGCGGUuc -5'
33115 3' -61.3 NC_007497.1 + 10895 0.66 0.346021
Target:  5'- cGCUACCGccccagcaaGGGGCGGCGaaCGUgGAGc -3'
miRNA:   3'- aCGGUGGC---------UCCUGCCGUggGCGgUUC- -5'
33115 3' -61.3 NC_007497.1 + 44653 0.66 0.346021
Target:  5'- gGCCGCCGAugcugucgcgGGGCuGuaGCCUGCCGc- -3'
miRNA:   3'- aCGGUGGCU----------CCUG-CcgUGGGCGGUuc -5'
33115 3' -61.3 NC_007497.1 + 2445 0.66 0.354211
Target:  5'- cGCCGCUGGGcGuucgcGCGGCgACgCGCCAu- -3'
miRNA:   3'- aCGGUGGCUC-C-----UGCCG-UGgGCGGUuc -5'
33115 3' -61.3 NC_007497.1 + 13809 0.66 0.354211
Target:  5'- gGCCGCCGcauGGGCcGCACgggaCGCCGcAGg -3'
miRNA:   3'- aCGGUGGCu--CCUGcCGUGg---GCGGU-UC- -5'
33115 3' -61.3 NC_007497.1 + 3136 0.67 0.307129
Target:  5'- cUGUCuCgCGcucGGACGGCGCCgGCCAGc -3'
miRNA:   3'- -ACGGuG-GCu--CCUGCCGUGGgCGGUUc -5'
33115 3' -61.3 NC_007497.1 + 13842 0.67 0.299763
Target:  5'- gGCCGCCGcAGGG-GGCGCcgcaugggCCGCaCGGGa -3'
miRNA:   3'- aCGGUGGC-UCCUgCCGUG--------GGCG-GUUC- -5'
33115 3' -61.3 NC_007497.1 + 37767 0.68 0.27167
Target:  5'- gGCCGCCGAacucgcgacGGACacguagccuuuGGCGCCC-CCGAc -3'
miRNA:   3'- aCGGUGGCU---------CCUG-----------CCGUGGGcGGUUc -5'
33115 3' -61.3 NC_007497.1 + 34492 0.73 0.109759
Target:  5'- cGCCACCGugccgacggucgucAGGAUgccgGGCAgCCCGCCGAc -3'
miRNA:   3'- aCGGUGGC--------------UCCUG----CCGU-GGGCGGUUc -5'
33115 3' -61.3 NC_007497.1 + 16216 0.71 0.158902
Target:  5'- cGCCGCCGAGGcugugugcuucguucGCgGGCGCCCucacuuccacuacGCCGAc -3'
miRNA:   3'- aCGGUGGCUCC---------------UG-CCGUGGG-------------CGGUUc -5'
33115 3' -61.3 NC_007497.1 + 17853 0.7 0.174443
Target:  5'- gGCCugagcuucggaaagcCCGAGGAUGGCgacuggaaguuguuGCCCGCCGc- -3'
miRNA:   3'- aCGGu--------------GGCUCCUGCCG--------------UGGGCGGUuc -5'
33115 3' -61.3 NC_007497.1 + 32488 0.7 0.180076
Target:  5'- uUGCCGCCGGcGGCGGCcGCgaCGCCAu- -3'
miRNA:   3'- -ACGGUGGCUcCUGCCG-UGg-GCGGUuc -5'
33115 3' -61.3 NC_007497.1 + 8613 0.7 0.194868
Target:  5'- aGCCACaCGAccGGGCGGCcgacgcgccccGCCCGCUu-- -3'
miRNA:   3'- aCGGUG-GCU--CCUGCCG-----------UGGGCGGuuc -5'
33115 3' -61.3 NC_007497.1 + 26745 0.68 0.252017
Target:  5'- gUGCCuguACCGAuGGCGGCACgaCCGUCAc- -3'
miRNA:   3'- -ACGG---UGGCUcCUGCCGUG--GGCGGUuc -5'
33115 3' -61.3 NC_007497.1 + 4895 0.68 0.258434
Target:  5'- uUGCCuCCGccGACGGCcgcACCgGCCAGc -3'
miRNA:   3'- -ACGGuGGCucCUGCCG---UGGgCGGUUc -5'
33115 3' -61.3 NC_007497.1 + 27465 0.68 0.26965
Target:  5'- cGCCGCCGuguacacguacaccGGaucuGACGGCAugUCCGCCGAu -3'
miRNA:   3'- aCGGUGGC--------------UC----CUGCCGU--GGGCGGUUc -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.