miRNA display CGI


Results 1 - 15 of 15 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
12140 3' -55.8 NC_003309.1 + 10717 0.66 0.70898
Target:  5'- cGCgaGCGaagcCUCGGCGCGcucgaGCUCCugCu -3'
miRNA:   3'- -CGaaCGCac--GAGCUGUGC-----CGAGGugG- -5'
12140 3' -55.8 NC_003309.1 + 23686 0.66 0.687479
Target:  5'- aGCUcGCGgcGCUCGACGCccuucCCGCCg -3'
miRNA:   3'- -CGAaCGCa-CGAGCUGUGccga-GGUGG- -5'
12140 3' -55.8 NC_003309.1 + 26345 0.66 0.687479
Target:  5'- aGCgacGCGcGCaCGACgACGGCcgcuccgauUCCACCg -3'
miRNA:   3'- -CGaa-CGCaCGaGCUG-UGCCG---------AGGUGG- -5'
12140 3' -55.8 NC_003309.1 + 22342 0.66 0.665769
Target:  5'- --gUGCGccgaucaggUGCUCGACGCaaGCgccggCCGCCa -3'
miRNA:   3'- cgaACGC---------ACGAGCUGUGc-CGa----GGUGG- -5'
12140 3' -55.8 NC_003309.1 + 45021 0.67 0.648306
Target:  5'- --cUGCGUGCagaacugccgcuugCGugAUGGaaaUCCGCCg -3'
miRNA:   3'- cgaACGCACGa-------------GCugUGCCg--AGGUGG- -5'
12140 3' -55.8 NC_003309.1 + 31890 0.68 0.567669
Target:  5'- cGCUUGCGgacgUGUUCGACaACGcGgUCUAUCc -3'
miRNA:   3'- -CGAACGC----ACGAGCUG-UGC-CgAGGUGG- -5'
12140 3' -55.8 NC_003309.1 + 49100 0.68 0.556914
Target:  5'- uGCUUcgGCGUGC-CGACcCGGUucugaucgaUCCACg -3'
miRNA:   3'- -CGAA--CGCACGaGCUGuGCCG---------AGGUGg -5'
12140 3' -55.8 NC_003309.1 + 39606 0.69 0.520834
Target:  5'- uGCgaGCGUGCugcgcuUCGugACGGauucaagaucgaaUCCGCCu -3'
miRNA:   3'- -CGaaCGCACG------AGCugUGCCg------------AGGUGG- -5'
12140 3' -55.8 NC_003309.1 + 11523 0.69 0.514558
Target:  5'- uGCUUGCGcGCccuucugCGACGCgaGGCU-CGCCg -3'
miRNA:   3'- -CGAACGCaCGa------GCUGUG--CCGAgGUGG- -5'
12140 3' -55.8 NC_003309.1 + 13815 0.69 0.513515
Target:  5'- uCUUgGUGUGUgCGACGCGGUUguugucgCCGCCg -3'
miRNA:   3'- cGAA-CGCACGaGCUGUGCCGA-------GGUGG- -5'
12140 3' -55.8 NC_003309.1 + 52949 0.69 0.504169
Target:  5'- -----gGUGCUUG-CACGGCUUCAUCg -3'
miRNA:   3'- cgaacgCACGAGCuGUGCCGAGGUGG- -5'
12140 3' -55.8 NC_003309.1 + 10595 0.69 0.493871
Target:  5'- ---cGCGUGCcgucgCGACAUGcGCUugcgCCGCCg -3'
miRNA:   3'- cgaaCGCACGa----GCUGUGC-CGA----GGUGG- -5'
12140 3' -55.8 NC_003309.1 + 22019 0.7 0.473572
Target:  5'- aGCcggGCGUGCacgUCagGAC-CGGCUCCGCg -3'
miRNA:   3'- -CGaa-CGCACG---AG--CUGuGCCGAGGUGg -5'
12140 3' -55.8 NC_003309.1 + 4511 0.72 0.328802
Target:  5'- cGCUUGCGUGCUCaaacCACGGaagUUCGCg -3'
miRNA:   3'- -CGAACGCACGAGcu--GUGCCg--AGGUGg -5'
12140 3' -55.8 NC_003309.1 + 24041 1.14 0.00039
Target:  5'- uGCUUGCGUGCUCGACACGGCUCCACCg -3'
miRNA:   3'- -CGAACGCACGAGCUGUGCCGAGGUGG- -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.