miRNA display CGI


Results 1 - 20 of 26 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
12112 5' -54.4 NC_003309.1 + 30876 0.66 0.777231
Target:  5'- gCGAuCGAACcuagucgcaauccgaACgAGAUCaacgGCCGUGUCa -3'
miRNA:   3'- aGCU-GCUUG---------------UGgUCUAGa---CGGCGCAG- -5'
12112 5' -54.4 NC_003309.1 + 33965 0.66 0.773191
Target:  5'- aCGACGAuUACC-GAUgUGaCCGCGcCg -3'
miRNA:   3'- aGCUGCUuGUGGuCUAgAC-GGCGCaG- -5'
12112 5' -54.4 NC_003309.1 + 13162 0.66 0.773191
Target:  5'- gCGGCGAAUcgcgcgaaGCCGGAUC-GCCccccuGCGUUc -3'
miRNA:   3'- aGCUGCUUG--------UGGUCUAGaCGG-----CGCAG- -5'
12112 5' -54.4 NC_003309.1 + 32387 0.66 0.76299
Target:  5'- gCGACGGcucGCugCGGcg--GCCGUGUCc -3'
miRNA:   3'- aGCUGCU---UGugGUCuagaCGGCGCAG- -5'
12112 5' -54.4 NC_003309.1 + 966 0.66 0.752654
Target:  5'- gCGGCGGuCACC-GAUUUGCCGUu-- -3'
miRNA:   3'- aGCUGCUuGUGGuCUAGACGGCGcag -5'
12112 5' -54.4 NC_003309.1 + 22453 0.66 0.752654
Target:  5'- gCGGCGAuCGCacg--CUGCCGgCGUCg -3'
miRNA:   3'- aGCUGCUuGUGgucuaGACGGC-GCAG- -5'
12112 5' -54.4 NC_003309.1 + 5160 0.66 0.742192
Target:  5'- -aGGCGAGCugCGcGUC-GCCGCG-Cg -3'
miRNA:   3'- agCUGCUUGugGUcUAGaCGGCGCaG- -5'
12112 5' -54.4 NC_003309.1 + 20024 0.66 0.742192
Target:  5'- gCGACGGuuuGCACCg---CcGCCGCGUUg -3'
miRNA:   3'- aGCUGCU---UGUGGucuaGaCGGCGCAG- -5'
12112 5' -54.4 NC_003309.1 + 14868 0.66 0.731618
Target:  5'- gCGAUG-ACGCCAGc-CUGCCGCc-- -3'
miRNA:   3'- aGCUGCuUGUGGUCuaGACGGCGcag -5'
12112 5' -54.4 NC_003309.1 + 15329 0.67 0.720944
Target:  5'- gUCGGCGAugGCUg---CUGC-GCGUCg -3'
miRNA:   3'- -AGCUGCUugUGGucuaGACGgCGCAG- -5'
12112 5' -54.4 NC_003309.1 + 11904 0.67 0.716648
Target:  5'- cUCGGCGAGCGCCuccgcaaccaccAUCUGCUGauUCa -3'
miRNA:   3'- -AGCUGCUUGUGGuc----------UAGACGGCgcAG- -5'
12112 5' -54.4 NC_003309.1 + 43526 0.67 0.71018
Target:  5'- gUCGGCGGccaucgcgcGCAUCAGGUC-GCgGCaGUCu -3'
miRNA:   3'- -AGCUGCU---------UGUGGUCUAGaCGgCG-CAG- -5'
12112 5' -54.4 NC_003309.1 + 11234 0.67 0.699338
Target:  5'- aCG-CGGACugCGcgucGUCUGCCGCG-Cg -3'
miRNA:   3'- aGCuGCUUGugGUc---UAGACGGCGCaG- -5'
12112 5' -54.4 NC_003309.1 + 19038 0.68 0.666463
Target:  5'- aUCGGCcGuuGCUGGAUCUGCgCGcCGUCg -3'
miRNA:   3'- -AGCUGcUugUGGUCUAGACG-GC-GCAG- -5'
12112 5' -54.4 NC_003309.1 + 48725 0.68 0.666463
Target:  5'- --aGCGAAuCAUCAGGUCgacugccaaUGCCGCGUg -3'
miRNA:   3'- agcUGCUU-GUGGUCUAG---------ACGGCGCAg -5'
12112 5' -54.4 NC_003309.1 + 46365 0.68 0.655425
Target:  5'- cUCcGCGAGCGCCGccucGAUCUGCuuaCGCGg- -3'
miRNA:   3'- -AGcUGCUUGUGGU----CUAGACG---GCGCag -5'
12112 5' -54.4 NC_003309.1 + 19484 0.69 0.589094
Target:  5'- uUCGGCGuGCggcuguACCAGAUCUccguucGCUGCGUg -3'
miRNA:   3'- -AGCUGCuUG------UGGUCUAGA------CGGCGCAg -5'
12112 5' -54.4 NC_003309.1 + 32809 0.69 0.589094
Target:  5'- aCGACGAGuCGCUGGAgauggCUGCUgauGCGUUg -3'
miRNA:   3'- aGCUGCUU-GUGGUCUa----GACGG---CGCAG- -5'
12112 5' -54.4 NC_003309.1 + 52577 0.69 0.589094
Target:  5'- -gGACGGcCACCGGGccUUUGCCGUGg- -3'
miRNA:   3'- agCUGCUuGUGGUCU--AGACGGCGCag -5'
12112 5' -54.4 NC_003309.1 + 10334 0.69 0.571546
Target:  5'- cUCGACGAGCgcucGCCGGGcgccgacccacgcugUCgccGCCuGCGUCg -3'
miRNA:   3'- -AGCUGCUUG----UGGUCU---------------AGa--CGG-CGCAG- -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.