miRNA display CGI


Results 1 - 20 of 26 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
7977 3' -57.4 NC_001973.1 + 24174 0.66 0.863035
Target:  5'- uGCcGCUGCGGC-CGcGGC-GcgUCAGCg -3'
miRNA:   3'- -UGaCGACGCCGaGC-UCGaCuaGGUCG- -5'
7977 3' -57.4 NC_001973.1 + 132546 0.66 0.855373
Target:  5'- cGCgGCgGCgGGCUCGAGCgcggcGGUgUGGCg -3'
miRNA:   3'- -UGaCGaCG-CCGAGCUCGa----CUAgGUCG- -5'
7977 3' -57.4 NC_001973.1 + 122602 0.66 0.852251
Target:  5'- uGCUGCggcggaggcgucgGCGGCgccgacgCGGGCg---CCGGCg -3'
miRNA:   3'- -UGACGa------------CGCCGa------GCUCGacuaGGUCG- -5'
7977 3' -57.4 NC_001973.1 + 124701 0.66 0.847509
Target:  5'- --gGCgGUGGC-CGAGCUGua-CGGCa -3'
miRNA:   3'- ugaCGaCGCCGaGCUCGACuagGUCG- -5'
7977 3' -57.4 NC_001973.1 + 23920 0.66 0.839451
Target:  5'- cGCUGaC-GCGGCUCGA-CUGcgCC-GCg -3'
miRNA:   3'- -UGAC-GaCGCCGAGCUcGACuaGGuCG- -5'
7977 3' -57.4 NC_001973.1 + 147056 0.66 0.839451
Target:  5'- --cGaaGCGGUUCGuGCcGAUCUGGCg -3'
miRNA:   3'- ugaCgaCGCCGAGCuCGaCUAGGUCG- -5'
7977 3' -57.4 NC_001973.1 + 55890 0.66 0.831206
Target:  5'- gGCgGCgGCaGGCUCGGGCUcGGgcUCgGGCu -3'
miRNA:   3'- -UGaCGaCG-CCGAGCUCGA-CU--AGgUCG- -5'
7977 3' -57.4 NC_001973.1 + 95460 0.66 0.82278
Target:  5'- --cGCUGCuGCUCGAGgaGcUgCGGCu -3'
miRNA:   3'- ugaCGACGcCGAGCUCgaCuAgGUCG- -5'
7977 3' -57.4 NC_001973.1 + 73900 0.67 0.814182
Target:  5'- cGCUGacgUGCGGCgacgCGAGCgaGAaaUCCGcGCa -3'
miRNA:   3'- -UGACg--ACGCCGa---GCUCGa-CU--AGGU-CG- -5'
7977 3' -57.4 NC_001973.1 + 28935 0.67 0.814182
Target:  5'- cUUGCacGCGGCUgGGGCggcagcggGggCCGGCa -3'
miRNA:   3'- uGACGa-CGCCGAgCUCGa-------CuaGGUCG- -5'
7977 3' -57.4 NC_001973.1 + 102439 0.67 0.787432
Target:  5'- aGCUGCaGCGGCUCGAaaagaacucGCUcaacUgCAGCg -3'
miRNA:   3'- -UGACGaCGCCGAGCU---------CGAcu--AgGUCG- -5'
7977 3' -57.4 NC_001973.1 + 104258 0.68 0.730421
Target:  5'- aGCUGUucgGCGGCggcgccgccgcCGGGCUGGUCguGUc -3'
miRNA:   3'- -UGACGa--CGCCGa----------GCUCGACUAGguCG- -5'
7977 3' -57.4 NC_001973.1 + 69312 0.68 0.730421
Target:  5'- cACUGC--CGGCUCgugcaGAGCuUGcgCCAGCa -3'
miRNA:   3'- -UGACGacGCCGAG-----CUCG-ACuaGGUCG- -5'
7977 3' -57.4 NC_001973.1 + 40171 0.68 0.730421
Target:  5'- --cGC-GUGGCcCGAGCUGAUCU-GCa -3'
miRNA:   3'- ugaCGaCGCCGaGCUCGACUAGGuCG- -5'
7977 3' -57.4 NC_001973.1 + 67607 0.68 0.730421
Target:  5'- --gGUUgGCGGCg-GAGCUGGUgCCGGCc -3'
miRNA:   3'- ugaCGA-CGCCGagCUCGACUA-GGUCG- -5'
7977 3' -57.4 NC_001973.1 + 8848 0.68 0.720569
Target:  5'- cGCUGCUggcGCGGCgacaCGGGCUGuUCgAGa -3'
miRNA:   3'- -UGACGA---CGCCGa---GCUCGACuAGgUCg -5'
7977 3' -57.4 NC_001973.1 + 7065 0.68 0.708649
Target:  5'- --aGCUGCGcGCccuggucgagcgCGAGUUGAgUCCGGCg -3'
miRNA:   3'- ugaCGACGC-CGa-----------GCUCGACU-AGGUCG- -5'
7977 3' -57.4 NC_001973.1 + 41840 0.69 0.700649
Target:  5'- aGCcGCgGCuGCUCGAGCUGAagaUCCgAGUc -3'
miRNA:   3'- -UGaCGaCGcCGAGCUCGACU---AGG-UCG- -5'
7977 3' -57.4 NC_001973.1 + 60392 0.69 0.690598
Target:  5'- --aGCUGCacGCUCGAggaGCUGAUCUuGCa -3'
miRNA:   3'- ugaCGACGc-CGAGCU---CGACUAGGuCG- -5'
7977 3' -57.4 NC_001973.1 + 85155 0.69 0.670359
Target:  5'- uCUGCUGCGcGCcCGA-CUGGUCgUAGCg -3'
miRNA:   3'- uGACGACGC-CGaGCUcGACUAG-GUCG- -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.