miRNA display CGI


Results 1 - 20 of 31 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
24444 3' -60.8 NC_005264.1 + 161941 0.74 0.305754
Target:  5'- aGCGGcCCGCGAcacGGGGCCGUacacccaGUCGUa -3'
miRNA:   3'- -CGCCaGGCGUU---CCCCGGCGa------CAGCAc -5'
24444 3' -60.8 NC_005264.1 + 124303 0.66 0.750375
Target:  5'- cGCGG-CCggacgGCGGGGcGGCgGCUGaccCGUGg -3'
miRNA:   3'- -CGCCaGG-----CGUUCC-CCGgCGACa--GCAC- -5'
24444 3' -60.8 NC_005264.1 + 150735 0.66 0.750375
Target:  5'- -aGGUCgCGCGcGGGGCguacuuguuCGC-GUCGUGu -3'
miRNA:   3'- cgCCAG-GCGUuCCCCG---------GCGaCAGCAC- -5'
24444 3' -60.8 NC_005264.1 + 150801 0.66 0.740138
Target:  5'- aUGGUUCGCGggcgcuucgccuaAGGGcggcggucgccGCCGCagGUCGUGa -3'
miRNA:   3'- cGCCAGGCGU-------------UCCC-----------CGGCGa-CAGCAC- -5'
24444 3' -60.8 NC_005264.1 + 377 0.66 0.731684
Target:  5'- uUGGUCUuuGGGGGGCagcgccggCGCgGUCGUGu -3'
miRNA:   3'- cGCCAGGcgUUCCCCG--------GCGaCAGCAC- -5'
24444 3' -60.8 NC_005264.1 + 106576 0.66 0.719361
Target:  5'- gGCGGUggagcagaCCGCAAaccgcaugggcuuuGGGGUCGCggcGUaCGUGa -3'
miRNA:   3'- -CGCCA--------GGCGUU--------------CCCCGGCGa--CA-GCAC- -5'
24444 3' -60.8 NC_005264.1 + 93061 0.67 0.693413
Target:  5'- gGCuGUCUGCugcggGAGGGGCCGCgg-CGa- -3'
miRNA:   3'- -CGcCAGGCG-----UUCCCCGGCGacaGCac -5'
24444 3' -60.8 NC_005264.1 + 158121 0.67 0.654387
Target:  5'- gGCGGgcagCgGCGucuGGaccaGCUGCUGUCGUGg -3'
miRNA:   3'- -CGCCa---GgCGUu--CCc---CGGCGACAGCAC- -5'
24444 3' -60.8 NC_005264.1 + 5014 0.67 0.654387
Target:  5'- aGCGGUuuGCGcagAGGaGGCCacgagguuccGC-GUCGUGg -3'
miRNA:   3'- -CGCCAggCGU---UCC-CCGG----------CGaCAGCAC- -5'
24444 3' -60.8 NC_005264.1 + 113037 0.67 0.64457
Target:  5'- cGCGG-CCGCGAcuGGGCCGCgg-CGa- -3'
miRNA:   3'- -CGCCaGGCGUUc-CCCGGCGacaGCac -5'
24444 3' -60.8 NC_005264.1 + 122834 0.73 0.338835
Target:  5'- gGCGGUCCGCGAguucgggcccgggcGGGGCCGCagGagGa- -3'
miRNA:   3'- -CGCCAGGCGUU--------------CCCCGGCGa-CagCac -5'
24444 3' -60.8 NC_005264.1 + 20298 0.71 0.428539
Target:  5'- uGCGGcCC-CGAGGGGCugagguCGCUGuaUCGUGg -3'
miRNA:   3'- -CGCCaGGcGUUCCCCG------GCGAC--AGCAC- -5'
24444 3' -60.8 NC_005264.1 + 122641 0.7 0.490652
Target:  5'- cGCGGggggCCGCGAGggcGGGCgCGCUGacauUCGUc -3'
miRNA:   3'- -CGCCa---GGCGUUC---CCCG-GCGAC----AGCAc -5'
24444 3' -60.8 NC_005264.1 + 47447 0.69 0.527022
Target:  5'- -gGGUauagaugccaagaCCGCcccuGGGGGuuGUUGUCGUGa -3'
miRNA:   3'- cgCCA-------------GGCGu---UCCCCggCGACAGCAC- -5'
24444 3' -60.8 NC_005264.1 + 51927 0.69 0.566288
Target:  5'- gGUcGUCCGCGccgagcuuggcgAGGGuGCCGCUaacgcGUCGUGu -3'
miRNA:   3'- -CGcCAGGCGU------------UCCC-CGGCGA-----CAGCAC- -5'
24444 3' -60.8 NC_005264.1 + 158504 0.68 0.604303
Target:  5'- cGCGcucagCCGCcAGGGGCaggccugCGCUGUgGUGg -3'
miRNA:   3'- -CGCca---GGCGuUCCCCG-------GCGACAgCAC- -5'
24444 3' -60.8 NC_005264.1 + 11640 0.68 0.634744
Target:  5'- aCGGUaucagCGCGGcaGGGCUGCUGUCGUc -3'
miRNA:   3'- cGCCAg----GCGUUc-CCCGGCGACAGCAc -5'
24444 3' -60.8 NC_005264.1 + 80123 1.1 0.000995
Target:  5'- aGCGGUCCGCAAGGGGCCGCUGUCGUGg -3'
miRNA:   3'- -CGCCAGGCGUUCCCCGGCGACAGCAC- -5'
24444 3' -60.8 NC_005264.1 + 31709 0.66 0.750375
Target:  5'- -aGGUCgCGCGcGGGGCguacuuguuCGC-GUCGUGu -3'
miRNA:   3'- cgCCAG-GCGUuCCCCG---------GCGaCAGCAC- -5'
24444 3' -60.8 NC_005264.1 + 31775 0.66 0.740138
Target:  5'- aUGGUUCGCGggcgcuucgccuaAGGGcggcggucgccGCCGCagGUCGUGa -3'
miRNA:   3'- cGCCAGGCGU-------------UCCC-----------CGGCGa-CAGCAC- -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.