miRNA display CGI


Results 1 - 20 of 67 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
11039 3' -61.5 NC_002794.1 + 129238 0.8 0.136861
Target:  5'- aCGGGC-GGCUccGGCGGaCUCGGGUCGAg -3'
miRNA:   3'- cGCCCGcCCGA--UCGCC-GAGCUCAGCU- -5'
11039 3' -61.5 NC_002794.1 + 92325 0.78 0.173728
Target:  5'- gGCGGGggccCGGGCgGGCGGCUCGGcgucaacGUCGAc -3'
miRNA:   3'- -CGCCC----GCCCGaUCGCCGAGCU-------CAGCU- -5'
11039 3' -61.5 NC_002794.1 + 182333 0.78 0.186981
Target:  5'- gGCGGGCGGGCgAGCGGaCgggCGGG-CGGg -3'
miRNA:   3'- -CGCCCGCCCGaUCGCC-Ga--GCUCaGCU- -5'
11039 3' -61.5 NC_002794.1 + 104484 0.77 0.205392
Target:  5'- uGCGGGCGGccacGGCGGC-CGGGUCGGg -3'
miRNA:   3'- -CGCCCGCCcga-UCGCCGaGCUCAGCU- -5'
11039 3' -61.5 NC_002794.1 + 178790 0.74 0.321955
Target:  5'- -aGGGCGGGaaGGCGGCUCGGccCGGg -3'
miRNA:   3'- cgCCCGCCCgaUCGCCGAGCUcaGCU- -5'
11039 3' -61.5 NC_002794.1 + 10638 0.73 0.343189
Target:  5'- aCGGGCGGGg-AGCGGCgCGAGccCGAc -3'
miRNA:   3'- cGCCCGCCCgaUCGCCGaGCUCa-GCU- -5'
11039 3' -61.5 NC_002794.1 + 107887 0.73 0.380773
Target:  5'- gGCGcGGCGGGU--GCGGCUgcCGGGUCuGAg -3'
miRNA:   3'- -CGC-CCGCCCGauCGCCGA--GCUCAG-CU- -5'
11039 3' -61.5 NC_002794.1 + 55312 0.72 0.388612
Target:  5'- uCGcGGCGGGCgcgGGCGGCUUccgaggacccgGGGUCGc -3'
miRNA:   3'- cGC-CCGCCCGa--UCGCCGAG-----------CUCAGCu -5'
11039 3' -61.5 NC_002794.1 + 106359 0.72 0.396557
Target:  5'- gGCGGGCGGGCgc-CGGUUCGcG-CGGa -3'
miRNA:   3'- -CGCCCGCCCGaucGCCGAGCuCaGCU- -5'
11039 3' -61.5 NC_002794.1 + 186205 0.72 0.404606
Target:  5'- cGCGGGCcccaGGGCagaUGGCGGUcCGGGUCc- -3'
miRNA:   3'- -CGCCCG----CCCG---AUCGCCGaGCUCAGcu -5'
11039 3' -61.5 NC_002794.1 + 93774 0.72 0.421008
Target:  5'- uGCGGacGCGcGuGCUGGCGGCgcUCGAGUCc- -3'
miRNA:   3'- -CGCC--CGC-C-CGAUCGCCG--AGCUCAGcu -5'
11039 3' -61.5 NC_002794.1 + 138591 0.72 0.429358
Target:  5'- cGCGucGGCGcGGCggagAGCGGCUuugUGAGUCGc -3'
miRNA:   3'- -CGC--CCGC-CCGa---UCGCCGA---GCUCAGCu -5'
11039 3' -61.5 NC_002794.1 + 145322 0.71 0.437805
Target:  5'- cGCGcGGCGGGC-GGC-GCUCGGGccCGAg -3'
miRNA:   3'- -CGC-CCGCCCGaUCGcCGAGCUCa-GCU- -5'
11039 3' -61.5 NC_002794.1 + 101650 0.71 0.45498
Target:  5'- gGCGGGCGGGC-GGCGGUUagcccGUcCGAa -3'
miRNA:   3'- -CGCCCGCCCGaUCGCCGAgcu--CA-GCU- -5'
11039 3' -61.5 NC_002794.1 + 116215 0.71 0.45498
Target:  5'- --cGGCcucGGCcgcGCGGCUCGAGUCGAu -3'
miRNA:   3'- cgcCCGc--CCGau-CGCCGAGCUCAGCU- -5'
11039 3' -61.5 NC_002794.1 + 94279 0.71 0.472513
Target:  5'- cGCGGcGCGGcccgaGCggggGGCGGCUCGGG-CGc -3'
miRNA:   3'- -CGCC-CGCC-----CGa---UCGCCGAGCUCaGCu -5'
11039 3' -61.5 NC_002794.1 + 90942 0.71 0.481406
Target:  5'- cGUGGGCGGGCU-GUGcGC-CGAGgccCGGg -3'
miRNA:   3'- -CGCCCGCCCGAuCGC-CGaGCUCa--GCU- -5'
11039 3' -61.5 NC_002794.1 + 184507 0.7 0.499431
Target:  5'- gGCGGcGCGGGCcccgcgcGCGGCgCGGG-CGAc -3'
miRNA:   3'- -CGCC-CGCCCGau-----CGCCGaGCUCaGCU- -5'
11039 3' -61.5 NC_002794.1 + 95561 0.7 0.499431
Target:  5'- aGCuGGGCGaGGacgAGCGGCUCuauGUCGGc -3'
miRNA:   3'- -CG-CCCGC-CCga-UCGCCGAGcu-CAGCU- -5'
11039 3' -61.5 NC_002794.1 + 145934 0.7 0.51775
Target:  5'- -gGGGCcGGCgagAGCGGUUCGGGagucgCGAg -3'
miRNA:   3'- cgCCCGcCCGa--UCGCCGAGCUCa----GCU- -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.