miRNA display CGI


Results 1 - 20 of 41 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
26236 3' -54.2 NC_005342.2 + 12346 0.66 0.762721
Target:  5'- gGCGUauaa-CGGCgUGCGCGUCGCaaCGGg -3'
miRNA:   3'- -CGCAaguaaGUCG-ACGCGCAGCG--GCU- -5'
26236 3' -54.2 NC_005342.2 + 4179 0.66 0.742789
Target:  5'- uGCGccuggauuugCAGCUGCGCGUugaCGCuCGAg -3'
miRNA:   3'- -CGCaaguaa----GUCGACGCGCA---GCG-GCU- -5'
26236 3' -54.2 NC_005342.2 + 27201 0.66 0.741728
Target:  5'- aCGUUCAggcgcgCAGC--CGCGUCGgCGAu -3'
miRNA:   3'- cGCAAGUaa----GUCGacGCGCAGCgGCU- -5'
26236 3' -54.2 NC_005342.2 + 32047 0.66 0.731054
Target:  5'- cGCGUgCA--CGGCUGcCGgGUCGCUGc -3'
miRNA:   3'- -CGCAaGUaaGUCGAC-GCgCAGCGGCu -5'
26236 3' -54.2 NC_005342.2 + 31010 0.66 0.720278
Target:  5'- cGCGUUCGguuucUCGGCUGUacCGaCGUCGAc -3'
miRNA:   3'- -CGCAAGUa----AGUCGACGc-GCaGCGGCU- -5'
26236 3' -54.2 NC_005342.2 + 29714 0.67 0.698468
Target:  5'- uGCGg--AUUCAGCaGCGUGcCGUCGGc -3'
miRNA:   3'- -CGCaagUAAGUCGaCGCGCaGCGGCU- -5'
26236 3' -54.2 NC_005342.2 + 45138 0.67 0.687458
Target:  5'- cGCGa-CAUUgaucgaAGCUGCGUucacGUCGCCGGa -3'
miRNA:   3'- -CGCaaGUAAg-----UCGACGCG----CAGCGGCU- -5'
26236 3' -54.2 NC_005342.2 + 27109 0.67 0.676393
Target:  5'- gGCGUUCGagCAGgaUGCGCGgcCGCCc- -3'
miRNA:   3'- -CGCAAGUaaGUCg-ACGCGCa-GCGGcu -5'
26236 3' -54.2 NC_005342.2 + 34658 0.67 0.676393
Target:  5'- ---gUCGUUCcaaGGuCUGCGUGUCGuuGAg -3'
miRNA:   3'- cgcaAGUAAG---UC-GACGCGCAGCggCU- -5'
26236 3' -54.2 NC_005342.2 + 4072 0.67 0.676393
Target:  5'- aCGUgaagCAguaGGC-GCGCGUCGUCGGa -3'
miRNA:   3'- cGCAa---GUaagUCGaCGCGCAGCGGCU- -5'
26236 3' -54.2 NC_005342.2 + 37214 0.67 0.665284
Target:  5'- uCGUucUCAUUCGGUUGCGCcggGCCGc -3'
miRNA:   3'- cGCA--AGUAAGUCGACGCGcagCGGCu -5'
26236 3' -54.2 NC_005342.2 + 8982 0.67 0.654144
Target:  5'- cGCGUUCg--CGGCUugccaggcgGCGCGcUCGCUGc -3'
miRNA:   3'- -CGCAAGuaaGUCGA---------CGCGC-AGCGGCu -5'
26236 3' -54.2 NC_005342.2 + 8440 0.67 0.654144
Target:  5'- cGCGUUCGgaCGGCcacaGCGCGagcggCGUCGGu -3'
miRNA:   3'- -CGCAAGUaaGUCGa---CGCGCa----GCGGCU- -5'
26236 3' -54.2 NC_005342.2 + 20436 0.68 0.642983
Target:  5'- ----aCGUUCGGCgGCGCGaagccugCGCCGGu -3'
miRNA:   3'- cgcaaGUAAGUCGaCGCGCa------GCGGCU- -5'
26236 3' -54.2 NC_005342.2 + 808 0.68 0.642983
Target:  5'- uGCGg----UCGcCUGCGCGUCGCuCGGc -3'
miRNA:   3'- -CGCaaguaAGUcGACGCGCAGCG-GCU- -5'
26236 3' -54.2 NC_005342.2 + 46609 0.68 0.631812
Target:  5'- uGCGUUCGUUCAag-GC-CGcCGCCGGc -3'
miRNA:   3'- -CGCAAGUAAGUcgaCGcGCaGCGGCU- -5'
26236 3' -54.2 NC_005342.2 + 11882 0.68 0.631812
Target:  5'- cGCGgcccggCAUgcgCAGCgGCGCGcgCGCCa- -3'
miRNA:   3'- -CGCaa----GUAa--GUCGaCGCGCa-GCGGcu -5'
26236 3' -54.2 NC_005342.2 + 34136 0.68 0.631812
Target:  5'- uGCGcUCGacgCGGC-GCcCGUCGCCGAa -3'
miRNA:   3'- -CGCaAGUaa-GUCGaCGcGCAGCGGCU- -5'
26236 3' -54.2 NC_005342.2 + 17355 0.68 0.620641
Target:  5'- cGCGUUCAacCAGUcgaUGCGCGagaCGuCCGAg -3'
miRNA:   3'- -CGCAAGUaaGUCG---ACGCGCa--GC-GGCU- -5'
26236 3' -54.2 NC_005342.2 + 5383 0.68 0.620641
Target:  5'- cGCGUUC-UUCuGCcaucgcgGCaGCGUCGUCGGc -3'
miRNA:   3'- -CGCAAGuAAGuCGa------CG-CGCAGCGGCU- -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.