miRNA display CGI


Results 1 - 20 of 25 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
7171 5' -63.8 NC_001900.1 + 43468 0.66 0.291662
Target:  5'- -cCCCCGcGUCauggauCGGccGGCCAGCUCGg -3'
miRNA:   3'- ccGGGGC-CAGguc---GCC--UCGGUCGAGC- -5'
7171 5' -63.8 NC_001900.1 + 28830 0.72 0.116467
Target:  5'- uGGCCCCcgaaCCAGacCGGAGCCAuguGCUCGa -3'
miRNA:   3'- -CCGGGGcca-GGUC--GCCUCGGU---CGAGC- -5'
7171 5' -63.8 NC_001900.1 + 17475 0.71 0.136598
Target:  5'- cGGCUcauggaguCCGGUCUgcaGGCGauGGGUCAGCUCGg -3'
miRNA:   3'- -CCGG--------GGCCAGG---UCGC--CUCGGUCGAGC- -5'
7171 5' -63.8 NC_001900.1 + 30482 0.7 0.147823
Target:  5'- cGGCCggcucacgUCGGgcaCCAGCGGuGCCAGCg-- -3'
miRNA:   3'- -CCGG--------GGCCa--GGUCGCCuCGGUCGagc -5'
7171 5' -63.8 NC_001900.1 + 10657 0.7 0.155767
Target:  5'- gGGCUcgCCGGguacgUCCAGCGGuucGCCAGuCUCu -3'
miRNA:   3'- -CCGG--GGCC-----AGGUCGCCu--CGGUC-GAGc -5'
7171 5' -63.8 NC_001900.1 + 39695 0.69 0.172376
Target:  5'- cGCCgUGGgaacagaUCCAGCaGAGCCAGCgCGa -3'
miRNA:   3'- cCGGgGCC-------AGGUCGcCUCGGUCGaGC- -5'
7171 5' -63.8 NC_001900.1 + 43103 0.68 0.201524
Target:  5'- cGGCCuggCCGGUUCAGC--AGCCAGCcCa -3'
miRNA:   3'- -CCGG---GGCCAGGUCGccUCGGUCGaGc -5'
7171 5' -63.8 NC_001900.1 + 6476 0.67 0.258524
Target:  5'- aGGCUCUGGagUCCGcugucaacggcGCGGucccCCAGCUCGg -3'
miRNA:   3'- -CCGGGGCC--AGGU-----------CGCCuc--GGUCGAGC- -5'
7171 5' -63.8 NC_001900.1 + 37271 0.67 0.264896
Target:  5'- gGGCCgucguacaCGGcCCgcAGCGGGGCCAGgaacCUCGu -3'
miRNA:   3'- -CCGGg-------GCCaGG--UCGCCUCGGUC----GAGC- -5'
7171 5' -63.8 NC_001900.1 + 22251 0.72 0.113394
Target:  5'- cGCCCCGGcCCAGCGauGGCCgAGgUCGu -3'
miRNA:   3'- cCGGGGCCaGGUCGCc-UCGG-UCgAGC- -5'
7171 5' -63.8 NC_001900.1 + 18175 0.75 0.064076
Target:  5'- cGGCuCCUGGUCCAGCGGuGUgCAGCa-- -3'
miRNA:   3'- -CCG-GGGCCAGGUCGCCuCG-GUCGagc -5'
7171 5' -63.8 NC_001900.1 + 25759 0.66 0.284778
Target:  5'- cGCCCCGG-CgCAcGCGGAGCUucaUCGu -3'
miRNA:   3'- cCGGGGCCaG-GU-CGCCUCGGucgAGC- -5'
7171 5' -63.8 NC_001900.1 + 9784 0.66 0.298676
Target:  5'- cGGUCCCGGuggucccgcuUCCGaacCGGAcCCGGCUCu -3'
miRNA:   3'- -CCGGGGCC----------AGGUc--GCCUcGGUCGAGc -5'
7171 5' -63.8 NC_001900.1 + 21202 0.66 0.308714
Target:  5'- cGGCCCUGGUgaacaUCGGUGGcgaucugcugAccucguucaucaacaGCCAGCUCGc -3'
miRNA:   3'- -CCGGGGCCA-----GGUCGCC----------U---------------CGGUCGAGC- -5'
7171 5' -63.8 NC_001900.1 + 30721 0.66 0.298676
Target:  5'- cGGCCCCGaaaggCCGGgGGuccaCCAGCUUc -3'
miRNA:   3'- -CCGGGGCca---GGUCgCCuc--GGUCGAGc -5'
7171 5' -63.8 NC_001900.1 + 41235 0.67 0.246155
Target:  5'- cGGCCgcgaCGGugaUCCAcgcuGCGGGGCgCGGCUUGc -3'
miRNA:   3'- -CCGGg---GCC---AGGU----CGCCUCG-GUCGAGC- -5'
7171 5' -63.8 NC_001900.1 + 17365 0.67 0.233699
Target:  5'- -aCCUgCGGUCgGagaacgccgaucuGCGGAGUCAGCUCGa -3'
miRNA:   3'- ccGGG-GCCAGgU-------------CGCCUCGGUCGAGC- -5'
7171 5' -63.8 NC_001900.1 + 46001 0.68 0.222891
Target:  5'- -cCCgCCGGUCggguCGGCGGGuGCCcGCUCGa -3'
miRNA:   3'- ccGG-GGCCAG----GUCGCCU-CGGuCGAGC- -5'
7171 5' -63.8 NC_001900.1 + 25820 0.68 0.211976
Target:  5'- uGGUCCUGugcGUCCAG-GcGAGCCugcAGCUCGg -3'
miRNA:   3'- -CCGGGGC---CAGGUCgC-CUCGG---UCGAGC- -5'
7171 5' -63.8 NC_001900.1 + 20235 0.7 0.143991
Target:  5'- uGGCUCCGGUCUGGUucgGGGGCCAcgUCa -3'
miRNA:   3'- -CCGGGGCCAGGUCG---CCUCGGUcgAGc -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.