miRNA display CGI


Results 1 - 20 of 34 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
23283 3' -56.2 NC_005259.1 + 21168 0.66 0.734686
Target:  5'- uCACCGAC--GGCAGUCgGgucaucgGCGCg-- -3'
miRNA:   3'- -GUGGCUGguUCGUCAGgCa------CGCGaug -5'
23283 3' -56.2 NC_005259.1 + 56324 0.66 0.72426
Target:  5'- uCGCCG-UCGAGCAaUCCGacuuccucUGCGUUGCc -3'
miRNA:   3'- -GUGGCuGGUUCGUcAGGC--------ACGCGAUG- -5'
23283 3' -56.2 NC_005259.1 + 26145 0.66 0.707397
Target:  5'- cCGCCGagGCCGAGCAGcCCGaaaaugcccgcguccUGUGCg-- -3'
miRNA:   3'- -GUGGC--UGGUUCGUCaGGC---------------ACGCGaug -5'
23283 3' -56.2 NC_005259.1 + 50426 0.66 0.681774
Target:  5'- gACCGGCuCGGGCAG-CgGUGCGg-GCu -3'
miRNA:   3'- gUGGCUG-GUUCGUCaGgCACGCgaUG- -5'
23283 3' -56.2 NC_005259.1 + 53860 0.66 0.681774
Target:  5'- cCGCCGACCA--CAGcUCaa-GCGCUACg -3'
miRNA:   3'- -GUGGCUGGUucGUC-AGgcaCGCGAUG- -5'
23283 3' -56.2 NC_005259.1 + 67775 0.66 0.6807
Target:  5'- cCACCGACCAcGCGGUgaccuuguuggcaCCGcGUGCg-- -3'
miRNA:   3'- -GUGGCUGGUuCGUCA-------------GGCaCGCGaug -5'
23283 3' -56.2 NC_005259.1 + 36136 0.67 0.660213
Target:  5'- gGCCG-CCGGGCuGUCCGU-CGCc-- -3'
miRNA:   3'- gUGGCuGGUUCGuCAGGCAcGCGaug -5'
23283 3' -56.2 NC_005259.1 + 17771 0.67 0.660213
Target:  5'- gCGCCgGGCCGAGCGcaccGagCGUGCGCa-- -3'
miRNA:   3'- -GUGG-CUGGUUCGU----CagGCACGCGaug -5'
23283 3' -56.2 NC_005259.1 + 57316 0.67 0.660213
Target:  5'- gCACCGGCgGugucgguGUGGUCaUGUGCGCUGu -3'
miRNA:   3'- -GUGGCUGgUu------CGUCAG-GCACGCGAUg -5'
23283 3' -56.2 NC_005259.1 + 52150 0.67 0.649389
Target:  5'- uCGCCGAggCAGGCAGcgCCGagGCGCUcauGCa -3'
miRNA:   3'- -GUGGCUg-GUUCGUCa-GGCa-CGCGA---UG- -5'
23283 3' -56.2 NC_005259.1 + 47017 0.67 0.63855
Target:  5'- aGCCGACCAcgaccgccuccAGCAGgCCGgggaucUGCGCg-- -3'
miRNA:   3'- gUGGCUGGU-----------UCGUCaGGC------ACGCGaug -5'
23283 3' -56.2 NC_005259.1 + 51185 0.67 0.627705
Target:  5'- gAUCGAucUCAGGCAGUCCGgucuuacCGUUGCg -3'
miRNA:   3'- gUGGCU--GGUUCGUCAGGCac-----GCGAUG- -5'
23283 3' -56.2 NC_005259.1 + 45627 0.67 0.627705
Target:  5'- cCGCCgGGCCGGGCAGcgcgCCG-GUGCcGCc -3'
miRNA:   3'- -GUGG-CUGGUUCGUCa---GGCaCGCGaUG- -5'
23283 3' -56.2 NC_005259.1 + 41626 0.68 0.606036
Target:  5'- gGCUGACCAugguGGCGGUgCCGgucugcggGCGCUc- -3'
miRNA:   3'- gUGGCUGGU----UCGUCA-GGCa-------CGCGAug -5'
23283 3' -56.2 NC_005259.1 + 26067 0.68 0.606036
Target:  5'- cCGCCG-CCGAGCAGUCCcccgagGcCGCcGCc -3'
miRNA:   3'- -GUGGCuGGUUCGUCAGGca----C-GCGaUG- -5'
23283 3' -56.2 NC_005259.1 + 1948 0.68 0.606036
Target:  5'- aCACCGGCgUGAGCGuugucgugacGuUCCG-GCGCUACa -3'
miRNA:   3'- -GUGGCUG-GUUCGU----------C-AGGCaCGCGAUG- -5'
23283 3' -56.2 NC_005259.1 + 50499 0.68 0.606036
Target:  5'- aGCCGGUCGAuGUGGgCgGUGCGCUGCa -3'
miRNA:   3'- gUGGCUGGUU-CGUCaGgCACGCGAUG- -5'
23283 3' -56.2 NC_005259.1 + 15391 0.68 0.584454
Target:  5'- aACCGugGCCGcGCAcUCCcaaggGUGCGCUGCg -3'
miRNA:   3'- gUGGC--UGGUuCGUcAGG-----CACGCGAUG- -5'
23283 3' -56.2 NC_005259.1 + 10105 0.68 0.584454
Target:  5'- gGCC-ACCGAGCucaAGaCCGUGCGCa-- -3'
miRNA:   3'- gUGGcUGGUUCG---UCaGGCACGCGaug -5'
23283 3' -56.2 NC_005259.1 + 5827 0.68 0.584454
Target:  5'- aCACCGcCCGAGacCAGaaCGUGCGCaUGCu -3'
miRNA:   3'- -GUGGCuGGUUC--GUCagGCACGCG-AUG- -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.