miRNA display CGI


Results 1 - 20 of 27 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
8171 3' -64.5 NC_001978.2 + 34596 0.66 0.263837
Target:  5'- cGGCAGGG-UCGGa-CCGG-CGAgCCa -3'
miRNA:   3'- -CCGUCCCuGGCCgcGGCCuGCUgGGc -5'
8171 3' -64.5 NC_001978.2 + 9646 0.66 0.251314
Target:  5'- gGGC--GGACCGGuCGCgaaGGACG-CCCu -3'
miRNA:   3'- -CCGucCCUGGCC-GCGg--CCUGCuGGGc -5'
8171 3' -64.5 NC_001978.2 + 6415 0.66 0.251314
Target:  5'- aGGCugGGGGAaaUUGGCGCCcGACGucgcuGCCUGa -3'
miRNA:   3'- -CCG--UCCCU--GGCCGCGGcCUGC-----UGGGC- -5'
8171 3' -64.5 NC_001978.2 + 34711 0.66 0.245239
Target:  5'- uGCAacGGGGCucaguCGGCGUCGGcuCGaACCCGg -3'
miRNA:   3'- cCGU--CCCUG-----GCCGCGGCCu-GC-UGGGC- -5'
8171 3' -64.5 NC_001978.2 + 16613 0.66 0.239286
Target:  5'- cGGCAGGGGCgCGGUaguugugaaGUCGGAU--UCCGu -3'
miRNA:   3'- -CCGUCCCUG-GCCG---------CGGCCUGcuGGGC- -5'
8171 3' -64.5 NC_001978.2 + 19149 0.67 0.235773
Target:  5'- cGGCGGGGGCCGaaggugcuagcgcgaGCGCggcaacaGGAgugagucaaCGAUCCGg -3'
miRNA:   3'- -CCGUCCCUGGC---------------CGCGg------CCU---------GCUGGGC- -5'
8171 3' -64.5 NC_001978.2 + 27308 0.67 0.230013
Target:  5'- cGGCAgcgucgagcacgcccGGGAagaaaCCGGCGagcgcaUCGGACGucGCCCGg -3'
miRNA:   3'- -CCGU---------------CCCU-----GGCCGC------GGCCUGC--UGGGC- -5'
8171 3' -64.5 NC_001978.2 + 5184 0.67 0.216674
Target:  5'- cGGCGGaacGCUGaGCGCCGGA--GCCCGa -3'
miRNA:   3'- -CCGUCcc-UGGC-CGCGGCCUgcUGGGC- -5'
8171 3' -64.5 NC_001978.2 + 15980 0.67 0.211314
Target:  5'- -cCAGGGuCCGGaaggGCCGGAgGGUCCGg -3'
miRNA:   3'- ccGUCCCuGGCCg---CGGCCUgCUGGGC- -5'
8171 3' -64.5 NC_001978.2 + 18086 0.67 0.211314
Target:  5'- uGGCAGcgcaagcgcGGuuacuCCGGCGCCGacgcuGACGguugGCCCGg -3'
miRNA:   3'- -CCGUC---------CCu----GGCCGCGGC-----CUGC----UGGGC- -5'
8171 3' -64.5 NC_001978.2 + 12038 0.67 0.206069
Target:  5'- uGGCAGGuGAUcgcuaCGGCGCgCGG-CGGCuuCCGg -3'
miRNA:   3'- -CCGUCC-CUG-----GCCGCG-GCCuGCUG--GGC- -5'
8171 3' -64.5 NC_001978.2 + 20642 0.68 0.200936
Target:  5'- aGGuCGGGcaGACCGGuCGCCGGguucACGAUCUu -3'
miRNA:   3'- -CC-GUCC--CUGGCC-GCGGCC----UGCUGGGc -5'
8171 3' -64.5 NC_001978.2 + 40280 0.68 0.186202
Target:  5'- gGGCAGcGGgaagggucgGCCGGUcccCCGGuCGGCCCa -3'
miRNA:   3'- -CCGUC-CC---------UGGCCGc--GGCCuGCUGGGc -5'
8171 3' -64.5 NC_001978.2 + 11447 0.68 0.181507
Target:  5'- uGGCAcGGGCacgcaagcgguCGGCGCCGcuCGACCUGa -3'
miRNA:   3'- -CCGUcCCUG-----------GCCGCGGCcuGCUGGGC- -5'
8171 3' -64.5 NC_001978.2 + 4617 0.68 0.176916
Target:  5'- gGGCAGcGACgGGCGgaCGacGACGACCCu -3'
miRNA:   3'- -CCGUCcCUGgCCGCg-GC--CUGCUGGGc -5'
8171 3' -64.5 NC_001978.2 + 22880 0.68 0.176916
Target:  5'- cGCGGGGACggCGGCGUugUGGcCGugCCa -3'
miRNA:   3'- cCGUCCCUG--GCCGCG--GCCuGCugGGc -5'
8171 3' -64.5 NC_001978.2 + 8832 0.68 0.17243
Target:  5'- aGCGGGGgcACUGaGCGCCGcACG-CCCGu -3'
miRNA:   3'- cCGUCCC--UGGC-CGCGGCcUGCuGGGC- -5'
8171 3' -64.5 NC_001978.2 + 36964 0.68 0.17243
Target:  5'- uGGCAGGGugccgACCGGCaG-CGGcaGCGACCUc -3'
miRNA:   3'- -CCGUCCC-----UGGCCG-CgGCC--UGCUGGGc -5'
8171 3' -64.5 NC_001978.2 + 11718 0.69 0.155483
Target:  5'- cGGCuuaccGGGucguCCGGCGCCGGuccCuGCCCu -3'
miRNA:   3'- -CCGu----CCCu---GGCCGCGGCCu--GcUGGGc -5'
8171 3' -64.5 NC_001978.2 + 1837 0.69 0.150309
Target:  5'- cGGCAGGGuucAagcccuguugccguCCGGCGuCCGccgacACGACCCGg -3'
miRNA:   3'- -CCGUCCC---U--------------GGCCGC-GGCc----UGCUGGGC- -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.