miRNA display CGI


Results 1 - 20 of 22 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
17203 5' -53 NC_004333.2 + 25974 0.66 0.791934
Target:  5'- -gCAAgcGCAGGGCGgCGAAGcgcGGCGCu -3'
miRNA:   3'- uaGUU--CGUCUUGCaGCUUCu--CCGCGc -5'
17203 5' -53 NC_004333.2 + 6885 0.66 0.781742
Target:  5'- cAUCGAGCGGAucGCGgCGAcAGcGGCGUc -3'
miRNA:   3'- -UAGUUCGUCU--UGCaGCU-UCuCCGCGc -5'
17203 5' -53 NC_004333.2 + 28758 0.66 0.749147
Target:  5'- -gCGAGCGccGCGUCGAccgcgcgggucgcGGcGGCGCGa -3'
miRNA:   3'- uaGUUCGUcuUGCAGCU-------------UCuCCGCGC- -5'
17203 5' -53 NC_004333.2 + 11823 0.67 0.728541
Target:  5'- cUCAAGguGAACGUCGGugccGGucGGCuGCc -3'
miRNA:   3'- uAGUUCguCUUGCAGCU----UCu-CCG-CGc -5'
17203 5' -53 NC_004333.2 + 30945 0.67 0.728541
Target:  5'- aGUCGAugcGCGaGACGUCGGAGgagaaccgccAGGCGCu -3'
miRNA:   3'- -UAGUU---CGUcUUGCAGCUUC----------UCCGCGc -5'
17203 5' -53 NC_004333.2 + 30385 0.67 0.706451
Target:  5'- -gCGAuGCcGAACGUCGAAGcgaccGGCGCc -3'
miRNA:   3'- uaGUU-CGuCUUGCAGCUUCu----CCGCGc -5'
17203 5' -53 NC_004333.2 + 12834 0.67 0.706451
Target:  5'- gAUC-AGCGGAAUGUgCGA-GAcGGCGCu -3'
miRNA:   3'- -UAGuUCGUCUUGCA-GCUuCU-CCGCGc -5'
17203 5' -53 NC_004333.2 + 41712 0.67 0.706451
Target:  5'- uUCGGGCGGcACGgcgcgaucaaCGAGGAgaucGGCGCGg -3'
miRNA:   3'- uAGUUCGUCuUGCa---------GCUUCU----CCGCGC- -5'
17203 5' -53 NC_004333.2 + 39945 0.67 0.706451
Target:  5'- gAUCGAGCA-AGCGcUCGAAGAGuGCcCGa -3'
miRNA:   3'- -UAGUUCGUcUUGC-AGCUUCUC-CGcGC- -5'
17203 5' -53 NC_004333.2 + 5042 0.67 0.705338
Target:  5'- -cCAGGCGGccggcuguuggccGACGUCGgcGcGGCGCu -3'
miRNA:   3'- uaGUUCGUC-------------UUGCAGCuuCuCCGCGc -5'
17203 5' -53 NC_004333.2 + 30626 0.67 0.695283
Target:  5'- gGUCGuGCAGcAGCG-CGGcaAGGCGCGg -3'
miRNA:   3'- -UAGUuCGUC-UUGCaGCUucUCCGCGC- -5'
17203 5' -53 NC_004333.2 + 22529 0.68 0.68405
Target:  5'- gAUCcAGUAGAACGUgauguugccgagCGAcGAGcGCGCGg -3'
miRNA:   3'- -UAGuUCGUCUUGCA------------GCUuCUC-CGCGC- -5'
17203 5' -53 NC_004333.2 + 3368 0.68 0.65008
Target:  5'- aAUCGAGCGGAACaauGUCGAcc-GGCGUc -3'
miRNA:   3'- -UAGUUCGUCUUG---CAGCUucuCCGCGc -5'
17203 5' -53 NC_004333.2 + 45353 0.68 0.638706
Target:  5'- cUCGAGCuucGGGACGUCGuucgcGAGccaAGGCGCc -3'
miRNA:   3'- uAGUUCG---UCUUGCAGC-----UUC---UCCGCGc -5'
17203 5' -53 NC_004333.2 + 16843 0.69 0.627325
Target:  5'- cUCGAGCAGcGCGUCGcGGccaAGGCGa- -3'
miRNA:   3'- uAGUUCGUCuUGCAGCuUC---UCCGCgc -5'
17203 5' -53 NC_004333.2 + 37788 0.7 0.537286
Target:  5'- -gCAGGCcaAGGAUG-CGAAGcGGCGCGa -3'
miRNA:   3'- uaGUUCG--UCUUGCaGCUUCuCCGCGC- -5'
17203 5' -53 NC_004333.2 + 12448 0.7 0.515389
Target:  5'- -cCGGGCGGGGCG-CGGGcGGGCGCu -3'
miRNA:   3'- uaGUUCGUCUUGCaGCUUcUCCGCGc -5'
17203 5' -53 NC_004333.2 + 44249 0.73 0.402772
Target:  5'- -gCAGGCGGAACGU-GAaacAGuAGGCGCGc -3'
miRNA:   3'- uaGUUCGUCUUGCAgCU---UC-UCCGCGC- -5'
17203 5' -53 NC_004333.2 + 15322 0.74 0.338873
Target:  5'- cGUCGAGCAGGuCGUCGAuGAacuugucgaucucGGCGCa -3'
miRNA:   3'- -UAGUUCGUCUuGCAGCUuCU-------------CCGCGc -5'
17203 5' -53 NC_004333.2 + 37984 0.74 0.32307
Target:  5'- -gCAGGCAGuuugGCGUCGccGAGaGCGCGa -3'
miRNA:   3'- uaGUUCGUCu---UGCAGCuuCUC-CGCGC- -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.