miRNA display CGI


Results 1 - 20 of 51 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
23378 3' -57.8 NC_005259.1 + 16814 0.73 0.254058
Target:  5'- cGCUCGGGGCCGgggucaUGAUCC-GACACa -3'
miRNA:   3'- uCGAGCUCCGGUg-----ACUGGGaCUGUGg -5'
23378 3' -57.8 NC_005259.1 + 45156 0.73 0.267002
Target:  5'- cGCUC-AGGCCGCccuUGGCCUUGuugcGCGCCg -3'
miRNA:   3'- uCGAGcUCCGGUG---ACUGGGAC----UGUGG- -5'
23378 3' -57.8 NC_005259.1 + 25679 0.73 0.280475
Target:  5'- cGCagUCGAGGCCGgUGuCCCaccccaaagGACACCg -3'
miRNA:   3'- uCG--AGCUCCGGUgACuGGGa--------CUGUGG- -5'
23378 3' -57.8 NC_005259.1 + 36712 0.72 0.294483
Target:  5'- gAGCUCGu-GCCGCUcGACCCgccGCGCCc -3'
miRNA:   3'- -UCGAGCucCGGUGA-CUGGGac-UGUGG- -5'
23378 3' -57.8 NC_005259.1 + 39501 0.71 0.339747
Target:  5'- gAGCUUGAuGGCCGC--GCCgCUGGcCACCa -3'
miRNA:   3'- -UCGAGCU-CCGGUGacUGG-GACU-GUGG- -5'
23378 3' -57.8 NC_005259.1 + 14750 0.7 0.381168
Target:  5'- cGCUgGccGGGCCGgUGAUCCUGcacaacGCGCCg -3'
miRNA:   3'- uCGAgC--UCCGGUgACUGGGAC------UGUGG- -5'
23378 3' -57.8 NC_005259.1 + 17278 0.7 0.424903
Target:  5'- uGCUCGAccGCUAUuugaagcgguacuUGACCCUGuACGCCg -3'
miRNA:   3'- uCGAGCUc-CGGUG-------------ACUGGGAC-UGUGG- -5'
23378 3' -57.8 NC_005259.1 + 63651 0.7 0.425826
Target:  5'- uGCUCGcuGGCCGg-GACgCCgGACACCu -3'
miRNA:   3'- uCGAGCu-CCGGUgaCUG-GGaCUGUGG- -5'
23378 3' -57.8 NC_005259.1 + 778 0.69 0.43419
Target:  5'- cGC-CGAGGCgGCUG-CCCUcgguuggGugGCCa -3'
miRNA:   3'- uCGaGCUCCGgUGACuGGGA-------CugUGG- -5'
23378 3' -57.8 NC_005259.1 + 23347 0.69 0.453112
Target:  5'- gGGCUCGAGGCUGcCUGcgaggccGCCgaGGCAUg -3'
miRNA:   3'- -UCGAGCUCCGGU-GAC-------UGGgaCUGUGg -5'
23378 3' -57.8 NC_005259.1 + 45315 0.69 0.454069
Target:  5'- cGC-CGAGGCCGCcgccgaacugcgUGGCCU--GCGCCg -3'
miRNA:   3'- uCGaGCUCCGGUG------------ACUGGGacUGUGG- -5'
23378 3' -57.8 NC_005259.1 + 28629 0.69 0.454069
Target:  5'- aGGC-CaAGGCCACcgGugCC-GACACCg -3'
miRNA:   3'- -UCGaGcUCCGGUGa-CugGGaCUGUGG- -5'
23378 3' -57.8 NC_005259.1 + 25496 0.69 0.457912
Target:  5'- cGCUCGcgcgugagggcaaaaAGGCC-CUcGACCgUGGCAUCg -3'
miRNA:   3'- uCGAGC---------------UCCGGuGA-CUGGgACUGUGG- -5'
23378 3' -57.8 NC_005259.1 + 45481 0.69 0.463708
Target:  5'- gAGCUUcuGGCCGCUGgugGCCUUGGuCGCUg -3'
miRNA:   3'- -UCGAGcuCCGGUGAC---UGGGACU-GUGG- -5'
23378 3' -57.8 NC_005259.1 + 56262 0.69 0.473452
Target:  5'- cGGcCUUGAGcGCCGCcgcccGGCCCguaucGGCACCa -3'
miRNA:   3'- -UC-GAGCUC-CGGUGa----CUGGGa----CUGUGG- -5'
23378 3' -57.8 NC_005259.1 + 55905 0.68 0.493242
Target:  5'- cGC-CGGGGUCGCUGGCCa-GACcGCUg -3'
miRNA:   3'- uCGaGCUCCGGUGACUGGgaCUG-UGG- -5'
23378 3' -57.8 NC_005259.1 + 22438 0.68 0.493242
Target:  5'- -uCUCuGGGCCAUcGACUCUGGCuACCu -3'
miRNA:   3'- ucGAGcUCCGGUGaCUGGGACUG-UGG- -5'
23378 3' -57.8 NC_005259.1 + 49365 0.68 0.493242
Target:  5'- cGCgaugaaGAGGCCGgUGAgaucguUCUUGACGCCg -3'
miRNA:   3'- uCGag----CUCCGGUgACU------GGGACUGUGG- -5'
23378 3' -57.8 NC_005259.1 + 68399 0.68 0.503279
Target:  5'- uGCUCu-GGaCCACcaacguaGACCUUGACGCCu -3'
miRNA:   3'- uCGAGcuCC-GGUGa------CUGGGACUGUGG- -5'
23378 3' -57.8 NC_005259.1 + 28343 0.68 0.503279
Target:  5'- cGGCgaaaUCGAGGCCACgGugC-UGGCugCc -3'
miRNA:   3'- -UCG----AGCUCCGGUGaCugGgACUGugG- -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.