miRNA display CGI


Results 1 - 20 of 75 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
25516 3' -54.6 NC_005337.1 + 84395 0.66 0.939369
Target:  5'- gAGCUGCuacAUGgaCAUCGUGCG-GCu -3'
miRNA:   3'- gUCGAUGcc-UGCgaGUAGCACGCaCG- -5'
25516 3' -54.6 NC_005337.1 + 131548 0.66 0.939369
Target:  5'- -cGCUaccgGCGGACG-UCGUCGcGCucGUGCu -3'
miRNA:   3'- guCGA----UGCCUGCgAGUAGCaCG--CACG- -5'
25516 3' -54.6 NC_005337.1 + 80414 0.66 0.939369
Target:  5'- -uGCUcGCGGuggcguCGCUgGUCGUGCccGCg -3'
miRNA:   3'- guCGA-UGCCu-----GCGAgUAGCACGcaCG- -5'
25516 3' -54.6 NC_005337.1 + 47678 0.66 0.939369
Target:  5'- -uGCUgGCGGGCG-UCcgCGUGCGguacgacgGCg -3'
miRNA:   3'- guCGA-UGCCUGCgAGuaGCACGCa-------CG- -5'
25516 3' -54.6 NC_005337.1 + 123597 0.66 0.939369
Target:  5'- gAGCUGCGGccgcacgugccGCGCUCG-CG-G-GUGCu -3'
miRNA:   3'- gUCGAUGCC-----------UGCGAGUaGCaCgCACG- -5'
25516 3' -54.6 NC_005337.1 + 31075 0.66 0.939369
Target:  5'- gCAGUUgccgacACGGA-GCaugUCGUCGUccaGCGUGCa -3'
miRNA:   3'- -GUCGA------UGCCUgCG---AGUAGCA---CGCACG- -5'
25516 3' -54.6 NC_005337.1 + 117580 0.66 0.939369
Target:  5'- cCGGCaGCGGAgGC-CGcCGUGCGcgagaUGCu -3'
miRNA:   3'- -GUCGaUGCCUgCGaGUaGCACGC-----ACG- -5'
25516 3' -54.6 NC_005337.1 + 67961 0.66 0.934444
Target:  5'- cCAGCccgcgaccGCGG-CGCUCAcgcgguccagggUCGgcGCGUGCg -3'
miRNA:   3'- -GUCGa-------UGCCuGCGAGU------------AGCa-CGCACG- -5'
25516 3' -54.6 NC_005337.1 + 31510 0.66 0.934444
Target:  5'- uCAGCacgUGGAUGCUCAcgGUGCagGUGCc -3'
miRNA:   3'- -GUCGau-GCCUGCGAGUagCACG--CACG- -5'
25516 3' -54.6 NC_005337.1 + 64413 0.66 0.934444
Target:  5'- cCAGCaGCGGcCGCUUggCGgccaccaGCGUGUc -3'
miRNA:   3'- -GUCGaUGCCuGCGAGuaGCa------CGCACG- -5'
25516 3' -54.6 NC_005337.1 + 104190 0.66 0.934444
Target:  5'- gAGCUGgaGGACGCcugCAccugcgcccgacUCGUGUGUGa -3'
miRNA:   3'- gUCGAUg-CCUGCGa--GU------------AGCACGCACg -5'
25516 3' -54.6 NC_005337.1 + 123114 0.66 0.934444
Target:  5'- uGGC-ACGGcgaGCaCGUCGUGCG-GCg -3'
miRNA:   3'- gUCGaUGCCug-CGaGUAGCACGCaCG- -5'
25516 3' -54.6 NC_005337.1 + 10440 0.66 0.934444
Target:  5'- -uGCgcgGCGGuGCGCgCGUCGUGCGc-- -3'
miRNA:   3'- guCGa--UGCC-UGCGaGUAGCACGCacg -5'
25516 3' -54.6 NC_005337.1 + 99668 0.66 0.934444
Target:  5'- gCGGCU--GGGCGCgcc-CGUgGCGUGCg -3'
miRNA:   3'- -GUCGAugCCUGCGaguaGCA-CGCACG- -5'
25516 3' -54.6 NC_005337.1 + 42734 0.66 0.934444
Target:  5'- uGGCcACGGcCGCgccgagCGUGCgGUGCg -3'
miRNA:   3'- gUCGaUGCCuGCGagua--GCACG-CACG- -5'
25516 3' -54.6 NC_005337.1 + 56112 0.66 0.929273
Target:  5'- -uGCU-CGaGGCGCacggCAUCGccaGCGUGCg -3'
miRNA:   3'- guCGAuGC-CUGCGa---GUAGCa--CGCACG- -5'
25516 3' -54.6 NC_005337.1 + 67697 0.66 0.929273
Target:  5'- gGGUUGCGGAgGUacuUCAUCGUcuucucgggccGCGgGCg -3'
miRNA:   3'- gUCGAUGCCUgCG---AGUAGCA-----------CGCaCG- -5'
25516 3' -54.6 NC_005337.1 + 62010 0.66 0.929273
Target:  5'- aCAGCaGCcGcCGCUCGUCGUGgGccaugGCg -3'
miRNA:   3'- -GUCGaUGcCuGCGAGUAGCACgCa----CG- -5'
25516 3' -54.6 NC_005337.1 + 37507 0.66 0.929273
Target:  5'- -uGCUGCGGaaGCGCUCGgacuucUCGUggaugGCG-GCg -3'
miRNA:   3'- guCGAUGCC--UGCGAGU------AGCA-----CGCaCG- -5'
25516 3' -54.6 NC_005337.1 + 61370 0.66 0.928743
Target:  5'- gAGCgucuucGCGGACuggaagaGCUcCGUCGcggagGCGUGCa -3'
miRNA:   3'- gUCGa-----UGCCUG-------CGA-GUAGCa----CGCACG- -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.