miRNA display CGI


Results 1 - 20 of 50 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
16998 3' -53.6 NC_004333.2 + 1255 0.7 0.540051
Target:  5'- gCGAGGCuucgcGgcGCUCGCGgcgcUGCAgcaugaacagcaggcGCUCGCg -3'
miRNA:   3'- -GCUCCG-----CuaCGAGCGC----AUGU---------------UGAGCG- -5'
16998 3' -53.6 NC_004333.2 + 2859 0.7 0.546566
Target:  5'- gCGuuGCGgcGUUCGCGaACGACgUCGCa -3'
miRNA:   3'- -GCucCGCuaCGAGCGCaUGUUG-AGCG- -5'
16998 3' -53.6 NC_004333.2 + 4575 0.69 0.623955
Target:  5'- cCGGGuaGCGAuucuUGCUCGCGc---ACUCGCg -3'
miRNA:   3'- -GCUC--CGCU----ACGAGCGCauguUGAGCG- -5'
16998 3' -53.6 NC_004333.2 + 4607 0.66 0.775894
Target:  5'- uCGAGGCGA-GCgCGCGacacgccauuaaUGCGAUcaggCGCg -3'
miRNA:   3'- -GCUCCGCUaCGaGCGC------------AUGUUGa---GCG- -5'
16998 3' -53.6 NC_004333.2 + 5145 0.67 0.723384
Target:  5'- -cGGGCGAgccGCcCGUGUugucgagcagcGCAGCUUGCg -3'
miRNA:   3'- gcUCCGCUa--CGaGCGCA-----------UGUUGAGCG- -5'
16998 3' -53.6 NC_004333.2 + 6822 0.74 0.350221
Target:  5'- -cGGGCGcGUGCUCGagcgccacaCGUACAcACUCGCg -3'
miRNA:   3'- gcUCCGC-UACGAGC---------GCAUGU-UGAGCG- -5'
16998 3' -53.6 NC_004333.2 + 7425 0.66 0.785985
Target:  5'- ---cGCGAUGCgcucgaucagcaUCGCGUucaggaGCGACUUGCc -3'
miRNA:   3'- gcucCGCUACG------------AGCGCA------UGUUGAGCG- -5'
16998 3' -53.6 NC_004333.2 + 9246 0.67 0.700547
Target:  5'- gGGGGCGccucGC-CGCGUGCGGCauagccuUCGUg -3'
miRNA:   3'- gCUCCGCua--CGaGCGCAUGUUG-------AGCG- -5'
16998 3' -53.6 NC_004333.2 + 9501 0.74 0.350221
Target:  5'- gCGcGGCGGccagcUGCUCGacgaaGUACGACUUGCc -3'
miRNA:   3'- -GCuCCGCU-----ACGAGCg----CAUGUUGAGCG- -5'
16998 3' -53.6 NC_004333.2 + 9860 0.68 0.646273
Target:  5'- uCGAGGCGcauuucgccgGUcGC-CGCGUGCAcGgUCGCg -3'
miRNA:   3'- -GCUCCGC----------UA-CGaGCGCAUGU-UgAGCG- -5'
16998 3' -53.6 NC_004333.2 + 11514 0.68 0.668538
Target:  5'- aCGAGGCGcUGCgaagGCGU-CAugUCGa -3'
miRNA:   3'- -GCUCCGCuACGag--CGCAuGUugAGCg -5'
16998 3' -53.6 NC_004333.2 + 11855 0.67 0.73412
Target:  5'- cCGuAGGCGAUGCgaCGCccgGCGACUacucgggcggCGCg -3'
miRNA:   3'- -GC-UCCGCUACGa-GCGca-UGUUGA----------GCG- -5'
16998 3' -53.6 NC_004333.2 + 13749 0.66 0.805662
Target:  5'- uCGAGcGCGuaggacGC-CGCGcGCcGCUCGCg -3'
miRNA:   3'- -GCUC-CGCua----CGaGCGCaUGuUGAGCG- -5'
16998 3' -53.6 NC_004333.2 + 16160 0.67 0.744752
Target:  5'- uGGGGCGA-GUUCGaugucaaGUACGAgUaCGCg -3'
miRNA:   3'- gCUCCGCUaCGAGCg------CAUGUUgA-GCG- -5'
16998 3' -53.6 NC_004333.2 + 17037 0.74 0.358793
Target:  5'- gGGcGGCGAUgcauucgccggGCUCGCGcgcgagcaGCAACUCGCg -3'
miRNA:   3'- gCU-CCGCUA-----------CGAGCGCa-------UGUUGAGCG- -5'
16998 3' -53.6 NC_004333.2 + 17051 0.68 0.679623
Target:  5'- --uGGCGucAUGCUCGCGguguucCAGC-CGCg -3'
miRNA:   3'- gcuCCGC--UACGAGCGCau----GUUGaGCG- -5'
16998 3' -53.6 NC_004333.2 + 18187 0.68 0.646273
Target:  5'- -cGGGUGAUGCgcucgucgUGCGcGCGGCaUCGCa -3'
miRNA:   3'- gcUCCGCUACGa-------GCGCaUGUUG-AGCG- -5'
16998 3' -53.6 NC_004333.2 + 18808 0.66 0.764618
Target:  5'- -cGGGCGAcgagccGCUugaagugCGCGUGCGACagCGCa -3'
miRNA:   3'- gcUCCGCUa-----CGA-------GCGCAUGUUGa-GCG- -5'
16998 3' -53.6 NC_004333.2 + 19143 0.68 0.646273
Target:  5'- gCGGcGCGGUGCUCGCGcugguuaucgUGCuAGC-CGCg -3'
miRNA:   3'- -GCUcCGCUACGAGCGC----------AUG-UUGaGCG- -5'
16998 3' -53.6 NC_004333.2 + 19510 0.66 0.795911
Target:  5'- --uGGCGgcGCUCGUGgccguauggGCAAUcguUCGCa -3'
miRNA:   3'- gcuCCGCuaCGAGCGCa--------UGUUG---AGCG- -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.