miRNA display CGI


Results 1 - 20 of 38 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
23807 3' -56.3 NC_005261.1 + 11828 0.66 0.880769
Target:  5'- -aGUGGGggcggGGGCCCcgcgGgcgcGCGUucgcGAGCGCg -3'
miRNA:   3'- ugCACCU-----UCCGGGa---Ca---UGCA----CUCGCG- -5'
23807 3' -56.3 NC_005261.1 + 15971 0.66 0.873583
Target:  5'- gGCGggGGAGGGCCCgGgcCGcucacccggGcAGCGCg -3'
miRNA:   3'- -UGCa-CCUUCCGGGaCauGCa--------C-UCGCG- -5'
23807 3' -56.3 NC_005261.1 + 17082 0.66 0.894468
Target:  5'- gACG-GGAuGGGCCCgGUG-GUGugccAGCGCu -3'
miRNA:   3'- -UGCaCCU-UCCGGGaCAUgCAC----UCGCG- -5'
23807 3' -56.3 NC_005261.1 + 17178 0.68 0.772293
Target:  5'- gGCGUGGGcaGCCCUGccgcgGCGgcgaGcAGCGCg -3'
miRNA:   3'- -UGCACCUucCGGGACa----UGCa---C-UCGCG- -5'
23807 3' -56.3 NC_005261.1 + 22102 0.72 0.551077
Target:  5'- gGCG-GGAGGGCggUGUGCGgaGAGUGCg -3'
miRNA:   3'- -UGCaCCUUCCGggACAUGCa-CUCGCG- -5'
23807 3' -56.3 NC_005261.1 + 25280 0.67 0.834513
Target:  5'- cGCGaGGggGcGCggUCUGUGgcCGUGAGCGUc -3'
miRNA:   3'- -UGCaCCuuC-CG--GGACAU--GCACUCGCG- -5'
23807 3' -56.3 NC_005261.1 + 28762 0.68 0.808796
Target:  5'- cGCGgccGggGGCgCCUGggccgcgGCGcGGGCGCu -3'
miRNA:   3'- -UGCac-CuuCCG-GGACa------UGCaCUCGCG- -5'
23807 3' -56.3 NC_005261.1 + 31556 0.76 0.362861
Target:  5'- cACGccUGGGccGGGUCCUGgacgggcgcgccggACGUGAGCGCg -3'
miRNA:   3'- -UGC--ACCU--UCCGGGACa-------------UGCACUCGCG- -5'
23807 3' -56.3 NC_005261.1 + 40226 0.68 0.79989
Target:  5'- aGCGUcGucgucucuGGCCCgggGgcCGUGAGCGCc -3'
miRNA:   3'- -UGCAcCuu------CCGGGa--CauGCACUCGCG- -5'
23807 3' -56.3 NC_005261.1 + 43609 0.68 0.76283
Target:  5'- gGCGaGGAGGGCgagugCUUcGUGCuGUGGGCGCc -3'
miRNA:   3'- -UGCaCCUUCCG-----GGA-CAUG-CACUCGCG- -5'
23807 3' -56.3 NC_005261.1 + 43786 0.68 0.790832
Target:  5'- cGCGcGGAGGGCgCCgcggGUGaggGGGCGCc -3'
miRNA:   3'- -UGCaCCUUCCG-GGa---CAUgcaCUCGCG- -5'
23807 3' -56.3 NC_005261.1 + 44436 0.66 0.858566
Target:  5'- gACGUGGAGcGGCUCUcgcGgcUGUGGGaGCa -3'
miRNA:   3'- -UGCACCUU-CCGGGA---CauGCACUCgCG- -5'
23807 3' -56.3 NC_005261.1 + 49280 0.67 0.850745
Target:  5'- cGCGaGGAAGgcgcagaaGCCCgcgGCgGUGAGCGCc -3'
miRNA:   3'- -UGCaCCUUC--------CGGGacaUG-CACUCGCG- -5'
23807 3' -56.3 NC_005261.1 + 49361 0.68 0.772293
Target:  5'- cGCGUGGAggauguugAGGCUgucgcucgcgCUGgccaGCGUGcAGCGCu -3'
miRNA:   3'- -UGCACCU--------UCCGG----------GACa---UGCAC-UCGCG- -5'
23807 3' -56.3 NC_005261.1 + 52250 0.67 0.81754
Target:  5'- uCGUgGGAGGGCgCUGUccGCGccgGGGgGCg -3'
miRNA:   3'- uGCA-CCUUCCGgGACA--UGCa--CUCgCG- -5'
23807 3' -56.3 NC_005261.1 + 58014 0.7 0.673532
Target:  5'- gACGUGGAAGuGCCgCg--GCGgcagcuccaggGAGCGCg -3'
miRNA:   3'- -UGCACCUUC-CGG-GacaUGCa----------CUCGCG- -5'
23807 3' -56.3 NC_005261.1 + 58680 0.69 0.743564
Target:  5'- uACGgcaGGAGGCCCgGgcCGUcaGGGCGCg -3'
miRNA:   3'- -UGCac-CUUCCGGGaCauGCA--CUCGCG- -5'
23807 3' -56.3 NC_005261.1 + 61576 0.68 0.78163
Target:  5'- gGCGcUGGugauGGCCgUGUuCGUGGGCaGCc -3'
miRNA:   3'- -UGC-ACCuu--CCGGgACAuGCACUCG-CG- -5'
23807 3' -56.3 NC_005261.1 + 68281 0.68 0.790832
Target:  5'- cGCGcGGcGGGGCCCcGgcCGcGGGCGCg -3'
miRNA:   3'- -UGCaCC-UUCCGGGaCauGCaCUCGCG- -5'
23807 3' -56.3 NC_005261.1 + 74422 0.66 0.880769
Target:  5'- gGCG-GGAGGGCCgaGga---GAGCGCc -3'
miRNA:   3'- -UGCaCCUUCCGGgaCaugcaCUCGCG- -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.