miRNA display CGI


Results 1 - 20 of 80 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
31007 3' -57 NC_006560.1 + 150441 0.66 0.857135
Target:  5'- cGCGGCCgCGGccggcgcggguuUGggCgGGGcCGGCCCc -3'
miRNA:   3'- aCGUCGG-GCC------------ACaaGgUCCaGUUGGG- -5'
31007 3' -57 NC_006560.1 + 149488 0.68 0.741864
Target:  5'- gGCGGCCCGGgccgacgcuccccgcCCGGGccgcCGGCCCg -3'
miRNA:   3'- aCGUCGGGCCacaa-----------GGUCCa---GUUGGG- -5'
31007 3' -57 NC_006560.1 + 148879 0.67 0.816302
Target:  5'- gGCGGCCCccgGGgaucUUCCGGGcUCucCCCg -3'
miRNA:   3'- aCGUCGGG---CCac--AAGGUCC-AGuuGGG- -5'
31007 3' -57 NC_006560.1 + 146613 0.68 0.771347
Target:  5'- uUGCgGGCCUGGg--UCUGGGUCugcgucugAGCCCg -3'
miRNA:   3'- -ACG-UCGGGCCacaAGGUCCAG--------UUGGG- -5'
31007 3' -57 NC_006560.1 + 144393 0.66 0.879277
Target:  5'- cGCGGgCCGGcgGgccccCCGGGccuccgCGACCCa -3'
miRNA:   3'- aCGUCgGGCCa-Caa---GGUCCa-----GUUGGG- -5'
31007 3' -57 NC_006560.1 + 140375 0.7 0.683459
Target:  5'- cGCGGCCCGaGg--UCC-GGUCGuCCCc -3'
miRNA:   3'- aCGUCGGGC-CacaAGGuCCAGUuGGG- -5'
31007 3' -57 NC_006560.1 + 134254 0.67 0.807609
Target:  5'- cGCGGCCCgcccgaagccGGgcaGggCgGGGUCGACCg -3'
miRNA:   3'- aCGUCGGG----------CCa--CaaGgUCCAGUUGGg -5'
31007 3' -57 NC_006560.1 + 134203 0.66 0.849344
Target:  5'- cUGCuGGCgCGGgcccgCgGGGUCGGCCCc -3'
miRNA:   3'- -ACG-UCGgGCCacaa-GgUCCAGUUGGG- -5'
31007 3' -57 NC_006560.1 + 133220 0.69 0.713453
Target:  5'- cGCAG-CCGGcGgUCCGGcgugacGUCAACCCg -3'
miRNA:   3'- aCGUCgGGCCaCaAGGUC------CAGUUGGG- -5'
31007 3' -57 NC_006560.1 + 130627 0.66 0.879277
Target:  5'- gGCgugGGCCCGGcUGgccgcgaUCCAGGaCAcCCCc -3'
miRNA:   3'- aCG---UCGGGCC-ACa------AGGUCCaGUuGGG- -5'
31007 3' -57 NC_006560.1 + 129207 0.68 0.742831
Target:  5'- gGCGGCCCGGU----CGGGcgCAACCg -3'
miRNA:   3'- aCGUCGGGCCAcaagGUCCa-GUUGGg -5'
31007 3' -57 NC_006560.1 + 127033 0.66 0.879277
Target:  5'- gUGCAGCacguacaCGGUGUgcgCCAGGgcgCuGACgCg -3'
miRNA:   3'- -ACGUCGg------GCCACAa--GGUCCa--G-UUGgG- -5'
31007 3' -57 NC_006560.1 + 125091 0.72 0.557908
Target:  5'- cGCccGGCCCGGcGUgcgcuacuucgccCCGGGUCAgguGCCCg -3'
miRNA:   3'- aCG--UCGGGCCaCAa------------GGUCCAGU---UGGG- -5'
31007 3' -57 NC_006560.1 + 123290 0.69 0.702514
Target:  5'- cGCAGCcgccgccCCGGgGUUCCGGGaCGcuggacauGCCCg -3'
miRNA:   3'- aCGUCG-------GGCCaCAAGGUCCaGU--------UGGG- -5'
31007 3' -57 NC_006560.1 + 122725 1.12 0.001383
Target:  5'- cUGCAGCCCGGUGUUCCAGGUCAACCCg -3'
miRNA:   3'- -ACGUCGGGCCACAAGGUCCAGUUGGG- -5'
31007 3' -57 NC_006560.1 + 122546 0.69 0.737016
Target:  5'- cUGCGGgCCGG-GUUCUcgcgguggcgacugaGccGGUCGGCCCg -3'
miRNA:   3'- -ACGUCgGGCCaCAAGG---------------U--CCAGUUGGG- -5'
31007 3' -57 NC_006560.1 + 121731 0.67 0.807609
Target:  5'- gGCAGCCCGGcgGgggcgUCCg---CGGCCCc -3'
miRNA:   3'- aCGUCGGGCCa-Ca----AGGuccaGUUGGG- -5'
31007 3' -57 NC_006560.1 + 121287 0.68 0.789759
Target:  5'- aGCGGCCCGGcGUccUCCucggagAGGcuggaGGCCCg -3'
miRNA:   3'- aCGUCGGGCCaCA--AGG------UCCag---UUGGG- -5'
31007 3' -57 NC_006560.1 + 117473 0.69 0.732146
Target:  5'- cGCgAGCCCGGgcgUCCGGGcUCGcugguccACCUg -3'
miRNA:   3'- aCG-UCGGGCCacaAGGUCC-AGU-------UGGG- -5'
31007 3' -57 NC_006560.1 + 112861 0.68 0.771347
Target:  5'- gGCccgAGCUCGGcgg-CCAGGcgCAGCCCg -3'
miRNA:   3'- aCG---UCGGGCCacaaGGUCCa-GUUGGG- -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.