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
3615 3' -58.5 NC_001650.1 + 7735 0.68 0.703708
Target:  5'- gUGGAAGGUCcccauuGGGCC-CGGGUGc--- -3'
miRNA:   3'- -ACCUUCCAGu-----CCCGGuGUCCGCacac -5'
3615 3' -58.5 NC_001650.1 + 8539 0.76 0.321351
Target:  5'- cGGGGuGGUgGGGGCUAUggGGGUGUGUGg -3'
miRNA:   3'- aCCUU-CCAgUCCCGGUG--UCCGCACAC- -5'
3615 3' -58.5 NC_001650.1 + 13313 0.69 0.693868
Target:  5'- aGGGuuaGGGUUAGGGUgGCAGGCa---- -3'
miRNA:   3'- aCCU---UCCAGUCCCGgUGUCCGcacac -5'
3615 3' -58.5 NC_001650.1 + 21521 0.66 0.847488
Target:  5'- cGGggGGgCuacugcugggAGGGCCGCGGcuGCG-GUGg -3'
miRNA:   3'- aCCuuCCaG----------UCCCGGUGUC--CGCaCAC- -5'
3615 3' -58.5 NC_001650.1 + 22240 0.67 0.797514
Target:  5'- uUGGGguGGGcCAGGGCCgggacgggcacGCGGGCGa--- -3'
miRNA:   3'- -ACCU--UCCaGUCCCGG-----------UGUCCGCacac -5'
3615 3' -58.5 NC_001650.1 + 35298 0.72 0.515734
Target:  5'- cGGGcgcGGGcCAGGGCCACAcGCcUGUGg -3'
miRNA:   3'- aCCU---UCCaGUCCCGGUGUcCGcACAC- -5'
3615 3' -58.5 NC_001650.1 + 35525 1.09 0.001968
Target:  5'- gUGGAAGGUCAGGGCCACAGGCGUGUGg -3'
miRNA:   3'- -ACCUUCCAGUCCCGGUGUCCGCACAC- -5'
3615 3' -58.5 NC_001650.1 + 35698 0.68 0.703708
Target:  5'- cGGggGGcUCAcGGCCGCGGG-GUGc- -3'
miRNA:   3'- aCCuuCC-AGUcCCGGUGUCCgCACac -5'
3615 3' -58.5 NC_001650.1 + 36497 0.68 0.723208
Target:  5'- cGGggGG-CAGGGCCAggcugGGGC-UGUa -3'
miRNA:   3'- aCCuuCCaGUCCCGGUg----UCCGcACAc -5'
3615 3' -58.5 NC_001650.1 + 46481 0.69 0.664083
Target:  5'- aGGAguucaccucgGGGUCAGccaccGGUCGCgcggGGGCGUGUGc -3'
miRNA:   3'- aCCU----------UCCAGUC-----CCGGUG----UCCGCACAC- -5'
3615 3' -58.5 NC_001650.1 + 46610 0.66 0.823249
Target:  5'- aUGGAGcGGagGGGGCCGCcgcGGCGcaucugGUGc -3'
miRNA:   3'- -ACCUU-CCagUCCCGGUGu--CCGCa-----CAC- -5'
3615 3' -58.5 NC_001650.1 + 50736 0.67 0.770492
Target:  5'- -aGAAGGaCAGGGCCGCgguGGGCGc--- -3'
miRNA:   3'- acCUUCCaGUCCCGGUG---UCCGCacac -5'
3615 3' -58.5 NC_001650.1 + 50998 0.72 0.496761
Target:  5'- cGGggGGaCGGGGgCGCGGGCGcGg- -3'
miRNA:   3'- aCCuuCCaGUCCCgGUGUCCGCaCac -5'
3615 3' -58.5 NC_001650.1 + 52715 0.67 0.788639
Target:  5'- gGGAGacGGUCcagGGGGCCACGguGGCG-GUc -3'
miRNA:   3'- aCCUU--CCAG---UCCCGGUGU--CCGCaCAc -5'
3615 3' -58.5 NC_001650.1 + 53406 0.73 0.457095
Target:  5'- cGGAgAGGUCGGGGUCaACcggcggucagagggGGGCGUGUa -3'
miRNA:   3'- aCCU-UCCAGUCCCGG-UG--------------UCCGCACAc -5'
3615 3' -58.5 NC_001650.1 + 57553 0.66 0.823249
Target:  5'- cGGccaccAGG-CGGcGCCACAGGCGgGUGg -3'
miRNA:   3'- aCCu----UCCaGUCcCGGUGUCCGCaCAC- -5'
3615 3' -58.5 NC_001650.1 + 59964 0.66 0.831505
Target:  5'- gUGGggGGcgCcucgcccccgGGGGCCACGGGCc---- -3'
miRNA:   3'- -ACCuuCCa-G----------UCCCGGUGUCCGcacac -5'
3615 3' -58.5 NC_001650.1 + 60178 0.67 0.770492
Target:  5'- aGGGAGGaggcCGGGGUCuGCGGGCGgcggGUc -3'
miRNA:   3'- aCCUUCCa---GUCCCGG-UGUCCGCa---CAc -5'
3615 3' -58.5 NC_001650.1 + 60328 0.67 0.770492
Target:  5'- aGGAGGG-CGGGgaGCUGCAGGCGccgGUu -3'
miRNA:   3'- aCCUUCCaGUCC--CGGUGUCCGCa--CAc -5'
3615 3' -58.5 NC_001650.1 + 64018 0.66 0.846706
Target:  5'- cGGAguuuucaGGGUCuccGGGGUCGCGGGCa---- -3'
miRNA:   3'- aCCU-------UCCAG---UCCCGGUGUCCGcacac -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.