miRNA display CGI


Results 1 - 20 of 66 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
26656 3' -60.7 NC_005808.1 + 402 0.67 0.309369
Target:  5'- gCGCCCACCagcagcACG-GCGGUgaUCGUCgGCc -3'
miRNA:   3'- -GCGGGUGG------UGCuCGUCA--AGCGGgCGc -5'
26656 3' -60.7 NC_005808.1 + 2063 0.7 0.210642
Target:  5'- gCGCCUgggccucaagaucaGCCACuGGCAGguggCGCCCGUa -3'
miRNA:   3'- -GCGGG--------------UGGUGcUCGUCaa--GCGGGCGc -5'
26656 3' -60.7 NC_005808.1 + 2211 0.66 0.391043
Target:  5'- aCGCCCucgucggguagcACCACGcgcAGCAGgcggCGCguggCCGCGc -3'
miRNA:   3'- -GCGGG------------UGGUGC---UCGUCaa--GCG----GGCGC- -5'
26656 3' -60.7 NC_005808.1 + 2367 0.73 0.131423
Target:  5'- uCGgCCugCACGuGGCAGa-CGCCCGCGu -3'
miRNA:   3'- -GCgGGugGUGC-UCGUCaaGCGGGCGC- -5'
26656 3' -60.7 NC_005808.1 + 3224 0.66 0.373625
Target:  5'- uGCCCGCCACGAuGaauaaUUCGaCCUGCc -3'
miRNA:   3'- gCGGGUGGUGCU-Cguc--AAGC-GGGCGc -5'
26656 3' -60.7 NC_005808.1 + 3467 0.71 0.181425
Target:  5'- gCGCCCcgauguUCGCGGGCgAGUUCgacgGCCCGCu -3'
miRNA:   3'- -GCGGGu-----GGUGCUCG-UCAAG----CGGGCGc -5'
26656 3' -60.7 NC_005808.1 + 3558 0.67 0.348503
Target:  5'- uGCgUACUgguacaGCGGGCcGUcgaacUCGCCCGCGa -3'
miRNA:   3'- gCGgGUGG------UGCUCGuCA-----AGCGGGCGC- -5'
26656 3' -60.7 NC_005808.1 + 3795 0.67 0.332436
Target:  5'- uGCCCACCACcGGCGugaacggcacGggCGCCacgaGCGc -3'
miRNA:   3'- gCGGGUGGUGcUCGU----------CaaGCGGg---CGC- -5'
26656 3' -60.7 NC_005808.1 + 4587 0.71 0.186278
Target:  5'- cCGCCCAgcacgccacguUCACGGGCGc--CGCCCGUGa -3'
miRNA:   3'- -GCGGGU-----------GGUGCUCGUcaaGCGGGCGC- -5'
26656 3' -60.7 NC_005808.1 + 4898 0.67 0.332436
Target:  5'- gGCCUcguuuucgGCCACGguggaaacgucGGCAGcgaUGCCCGCGa -3'
miRNA:   3'- gCGGG--------UGGUGC-----------UCGUCaa-GCGGGCGC- -5'
26656 3' -60.7 NC_005808.1 + 5535 0.67 0.332436
Target:  5'- cCGCCCAgguuCCGCc--CAGgUCGCCCGCc -3'
miRNA:   3'- -GCGGGU----GGUGcucGUCaAGCGGGCGc -5'
26656 3' -60.7 NC_005808.1 + 6740 0.67 0.324609
Target:  5'- gGgCCGCCGCGcucaauAGCggaaaggucuuuAGUUUGCCCGCc -3'
miRNA:   3'- gCgGGUGGUGC------UCG------------UCAAGCGGGCGc -5'
26656 3' -60.7 NC_005808.1 + 8599 0.7 0.201527
Target:  5'- gGCCUgcgauACCugG-GCaAGUUCGCCgGCGa -3'
miRNA:   3'- gCGGG-----UGGugCuCG-UCAAGCGGgCGC- -5'
26656 3' -60.7 NC_005808.1 + 9265 0.67 0.340401
Target:  5'- gCGCCgCGCCGcCGAGCAGgccaacgUCGaCgGCGc -3'
miRNA:   3'- -GCGG-GUGGU-GCUCGUCa------AGCgGgCGC- -5'
26656 3' -60.7 NC_005808.1 + 9623 0.69 0.243823
Target:  5'- uGCUCGCCaccgGCGAGCAGaUCGCacuggccgaacagggCCGCa -3'
miRNA:   3'- gCGGGUGG----UGCUCGUCaAGCG---------------GGCGc -5'
26656 3' -60.7 NC_005808.1 + 9723 0.67 0.309369
Target:  5'- aCGCCUcgaaGCCGCGGGCGaacUGCUCGUGg -3'
miRNA:   3'- -GCGGG----UGGUGCUCGUcaaGCGGGCGC- -5'
26656 3' -60.7 NC_005808.1 + 9802 1.09 0.000232
Target:  5'- gCGCCCACCACGAGCAGUUCGCCCGCGg -3'
miRNA:   3'- -GCGGGUGGUGCUCGUCAAGCGGGCGC- -5'
26656 3' -60.7 NC_005808.1 + 10924 0.68 0.279848
Target:  5'- uGCCCGCCGguuugcagggccuCGGGCAGUU-GCgCgGCGa -3'
miRNA:   3'- gCGGGUGGU-------------GCUCGUCAAgCG-GgCGC- -5'
26656 3' -60.7 NC_005808.1 + 10985 0.66 0.356741
Target:  5'- gGCCCugCaaaccgGCGGGCAGgUCGCCauuccgGUGg -3'
miRNA:   3'- gCGGGugG------UGCUCGUCaAGCGGg-----CGC- -5'
26656 3' -60.7 NC_005808.1 + 11125 0.67 0.309369
Target:  5'- gGUUCAaacgUGCGAGCAGUUCGgCCUGCu -3'
miRNA:   3'- gCGGGUg---GUGCUCGUCAAGC-GGGCGc -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.