miRNA display CGI


Results 1 - 20 of 35 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
23207 3' -57.7 NC_005259.1 + 25433 0.67 0.598765
Target:  5'- uCGAggaaUGCGAGCCguaugaggucgGCGAGCGUCUu- -3'
miRNA:   3'- -GCUaca-ACGCUCGG-----------CGCUCGCGGAcg -5'
23207 3' -57.7 NC_005259.1 + 55750 0.68 0.535799
Target:  5'- uGGUGUcgagaccgUGCGcAGCCGCGuacGCGUCgaGCu -3'
miRNA:   3'- gCUACA--------ACGC-UCGGCGCu--CGCGGa-CG- -5'
23207 3' -57.7 NC_005259.1 + 45964 0.68 0.546158
Target:  5'- cCGAcGUUGcCGAGCUugGCGAGUGUguccgcguacauCUGCg -3'
miRNA:   3'- -GCUaCAAC-GCUCGG--CGCUCGCG------------GACG- -5'
23207 3' -57.7 NC_005259.1 + 55708 0.67 0.556581
Target:  5'- ---cGUUGauGGCCGCGAGCaCCUcGCc -3'
miRNA:   3'- gcuaCAACgcUCGGCGCUCGcGGA-CG- -5'
23207 3' -57.7 NC_005259.1 + 47843 0.67 0.556581
Target:  5'- uGAcGgUGCGAGCUuuuCGAGCGCCuUGUu -3'
miRNA:   3'- gCUaCaACGCUCGGc--GCUCGCGG-ACG- -5'
23207 3' -57.7 NC_005259.1 + 56405 0.67 0.556581
Target:  5'- uCGAUGgUGCccggcccgccGAGCUcaagcagagcaGCGAGCGCCggGCc -3'
miRNA:   3'- -GCUACaACG----------CUCGG-----------CGCUCGCGGa-CG- -5'
23207 3' -57.7 NC_005259.1 + 24240 0.67 0.56706
Target:  5'- cCGAggcacGCGAGUUcgGCGAGUGCgUGCa -3'
miRNA:   3'- -GCUacaa-CGCUCGG--CGCUCGCGgACG- -5'
23207 3' -57.7 NC_005259.1 + 39061 0.67 0.56706
Target:  5'- gCGAUGUUGcCGAGCuUGCuGGCGUCg-- -3'
miRNA:   3'- -GCUACAAC-GCUCG-GCGcUCGCGGacg -5'
23207 3' -57.7 NC_005259.1 + 26481 0.67 0.577589
Target:  5'- aCGuaguUGUcGCGGaacGCCGCGAGCucGCCgcccgGCg -3'
miRNA:   3'- -GCu---ACAaCGCU---CGGCGCUCG--CGGa----CG- -5'
23207 3' -57.7 NC_005259.1 + 37564 0.68 0.525509
Target:  5'- cCGAUGUcgacUGCucGCCGCccGCGCCgaucUGCa -3'
miRNA:   3'- -GCUACA----ACGcuCGGCGcuCGCGG----ACG- -5'
23207 3' -57.7 NC_005259.1 + 20516 0.66 0.620048
Target:  5'- aCGGUGUccCGAGCa-CGGGUGCgCUGCc -3'
miRNA:   3'- -GCUACAacGCUCGgcGCUCGCG-GACG- -5'
23207 3' -57.7 NC_005259.1 + 45524 0.66 0.620048
Target:  5'- cCGGUGUUGgccgcCGuGGCUGCGAGCgGgUUGCu -3'
miRNA:   3'- -GCUACAAC-----GC-UCGGCGCUCG-CgGACG- -5'
23207 3' -57.7 NC_005259.1 + 4623 0.66 0.629643
Target:  5'- cCGGUGgcGCGAGuucuggauagugcCCGCGcaccGCGCCUacggGCa -3'
miRNA:   3'- -GCUACaaCGCUC-------------GGCGCu---CGCGGA----CG- -5'
23207 3' -57.7 NC_005259.1 + 43235 0.66 0.652025
Target:  5'- uGAUGa-GCGAGCUGaCGAuGCcGCCcGCg -3'
miRNA:   3'- gCUACaaCGCUCGGC-GCU-CG-CGGaCG- -5'
23207 3' -57.7 NC_005259.1 + 65332 0.66 0.652025
Target:  5'- uCGAUGU--CGAGCUGCuGuGCGCggGCa -3'
miRNA:   3'- -GCUACAacGCUCGGCG-CuCGCGgaCG- -5'
23207 3' -57.7 NC_005259.1 + 35320 0.66 0.662662
Target:  5'- gCGGUGUguacGCGAccCCGCGuAGCGCgUGa -3'
miRNA:   3'- -GCUACAa---CGCUc-GGCGC-UCGCGgACg -5'
23207 3' -57.7 NC_005259.1 + 8275 0.66 0.673272
Target:  5'- aGGUGUUGUaccGGGUgCGCGGGCaCCcGCa -3'
miRNA:   3'- gCUACAACG---CUCG-GCGCUCGcGGaCG- -5'
23207 3' -57.7 NC_005259.1 + 16511 0.66 0.673272
Target:  5'- cCGAga--GCGAggcGCUGCGAGCGUC-GCu -3'
miRNA:   3'- -GCUacaaCGCU---CGGCGCUCGCGGaCG- -5'
23207 3' -57.7 NC_005259.1 + 58586 0.7 0.418408
Target:  5'- gCGcgGcUGcCGGGCCGgaucuuuuCGAGCGCCUGg -3'
miRNA:   3'- -GCuaCaAC-GCUCGGC--------GCUCGCGGACg -5'
23207 3' -57.7 NC_005259.1 + 36221 0.79 0.116263
Target:  5'- gCGAUGc--CGAGCaccuuggccagCGCGAGCGCCUGCg -3'
miRNA:   3'- -GCUACaacGCUCG-----------GCGCUCGCGGACG- -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.