miRNA display CGI


Results 1 - 20 of 25 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
24253 5' -56.9 NC_005263.2 + 10429 0.66 0.553566
Target:  5'- gUCGGacaGCUCGUccgauucaauCAGGUCGAuCGCGu -3'
miRNA:   3'- aAGUCaagCGAGCG----------GUCCAGCU-GCGC- -5'
24253 5' -56.9 NC_005263.2 + 30214 0.66 0.54279
Target:  5'- aUCGGcgCGC-CGCC-GGUCGAcugaucguuCGCGg -3'
miRNA:   3'- aAGUCaaGCGaGCGGuCCAGCU---------GCGC- -5'
24253 5' -56.9 NC_005263.2 + 20834 0.66 0.54279
Target:  5'- cUCGGccUCGCgcaGUCGGGccaauUCGACGCGa -3'
miRNA:   3'- aAGUCa-AGCGag-CGGUCC-----AGCUGCGC- -5'
24253 5' -56.9 NC_005263.2 + 46835 0.67 0.532084
Target:  5'- ------aCGCgCGCCAGG-CGGCGCGc -3'
miRNA:   3'- aagucaaGCGaGCGGUCCaGCUGCGC- -5'
24253 5' -56.9 NC_005263.2 + 5454 0.67 0.532084
Target:  5'- -gCAGUagcgaUCGgUUGCCAcGUCGGCGCu -3'
miRNA:   3'- aaGUCA-----AGCgAGCGGUcCAGCUGCGc -5'
24253 5' -56.9 NC_005263.2 + 2274 0.67 0.521456
Target:  5'- -gCAGcgCGUUCGCCgucggcAGGUCGuGCGCc -3'
miRNA:   3'- aaGUCaaGCGAGCGG------UCCAGC-UGCGc -5'
24253 5' -56.9 NC_005263.2 + 10719 0.67 0.521456
Target:  5'- -gCAcgUCGCgcaGCCAGGgCGACGCa -3'
miRNA:   3'- aaGUcaAGCGag-CGGUCCaGCUGCGc -5'
24253 5' -56.9 NC_005263.2 + 28529 0.67 0.521456
Target:  5'- cUUCGGUUCGa-CGCCGGGcUCGA-GCu -3'
miRNA:   3'- -AAGUCAAGCgaGCGGUCC-AGCUgCGc -5'
24253 5' -56.9 NC_005263.2 + 31737 0.67 0.51091
Target:  5'- aUCAGgcCGC-CGCCGaG-CGACGCGg -3'
miRNA:   3'- aAGUCaaGCGaGCGGUcCaGCUGCGC- -5'
24253 5' -56.9 NC_005263.2 + 893 0.67 0.51091
Target:  5'- gUUCAGcgcggcggUCGC-CGCCGGcggguuacucGUCGACGCa -3'
miRNA:   3'- -AAGUCa-------AGCGaGCGGUC----------CAGCUGCGc -5'
24253 5' -56.9 NC_005263.2 + 14383 0.67 0.51091
Target:  5'- -cCGGgcCGCUCGuCCGGGUgCGGCaGCa -3'
miRNA:   3'- aaGUCaaGCGAGC-GGUCCA-GCUG-CGc -5'
24253 5' -56.9 NC_005263.2 + 31151 0.67 0.500455
Target:  5'- -gCGGUaCGcCUUGCCGuGUCGGCGCa -3'
miRNA:   3'- aaGUCAaGC-GAGCGGUcCAGCUGCGc -5'
24253 5' -56.9 NC_005263.2 + 40835 0.68 0.479837
Target:  5'- gUCAugUCGCUCGCCccGUCGAUGg- -3'
miRNA:   3'- aAGUcaAGCGAGCGGucCAGCUGCgc -5'
24253 5' -56.9 NC_005263.2 + 9566 0.68 0.479837
Target:  5'- -------gGCUUGCCAGG-CGGCGCGc -3'
miRNA:   3'- aagucaagCGAGCGGUCCaGCUGCGC- -5'
24253 5' -56.9 NC_005263.2 + 10266 0.68 0.459642
Target:  5'- -gCGGUUCGCgaaaCGCCGcGUCGGCGaCa -3'
miRNA:   3'- aaGUCAAGCGa---GCGGUcCAGCUGC-Gc -5'
24253 5' -56.9 NC_005263.2 + 29197 0.68 0.459642
Target:  5'- -gCGGUcaCGCUCGaCgCAGGcCGGCGCGu -3'
miRNA:   3'- aaGUCAa-GCGAGC-G-GUCCaGCUGCGC- -5'
24253 5' -56.9 NC_005263.2 + 21582 0.68 0.430223
Target:  5'- ---cGUgcUCGC-CGCCGGcGUCGACGCc -3'
miRNA:   3'- aaguCA--AGCGaGCGGUC-CAGCUGCGc -5'
24253 5' -56.9 NC_005263.2 + 10039 0.69 0.420666
Target:  5'- gUCAGggCGCcagguaUCGaaCGGGUCGGCGCa -3'
miRNA:   3'- aAGUCaaGCG------AGCg-GUCCAGCUGCGc -5'
24253 5' -56.9 NC_005263.2 + 16586 0.69 0.420666
Target:  5'- -gCGGcgacgCGUUCGCCGGGcUCGcGCGCGa -3'
miRNA:   3'- aaGUCaa---GCGAGCGGUCC-AGC-UGCGC- -5'
24253 5' -56.9 NC_005263.2 + 26299 0.69 0.408434
Target:  5'- --uGGcUUGCUCGCCGgccagcugcaggccGGUCGGCGUGa -3'
miRNA:   3'- aagUCaAGCGAGCGGU--------------CCAGCUGCGC- -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.