miRNA display CGI


Results 1 - 20 of 59 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
16489 3' -55 NC_004084.1 + 36885 0.65 0.776529
Target:  5'- gGGCcUCCUCaAGCUCGgcgaACUCGGCGGc -3'
miRNA:   3'- -CUGcAGGAGcUUGAGU----UGGGUCGCCu -5'
16489 3' -55 NC_004084.1 + 2697 0.66 0.766485
Target:  5'- cGACGauUCCUCGc-CUCGAUCUcgaGGUGGAg -3'
miRNA:   3'- -CUGC--AGGAGCuuGAGUUGGG---UCGCCU- -5'
16489 3' -55 NC_004084.1 + 41019 0.66 0.763445
Target:  5'- aGAUcUCCUCGAucACUCuGCcggcgagauccucaCCGGCGGAa -3'
miRNA:   3'- -CUGcAGGAGCU--UGAGuUG--------------GGUCGCCU- -5'
16489 3' -55 NC_004084.1 + 53283 0.66 0.756304
Target:  5'- cGACGUCCUggCGAccagccgcgaguACgUUGACCCGGCGa- -3'
miRNA:   3'- -CUGCAGGA--GCU------------UG-AGUUGGGUCGCcu -5'
16489 3' -55 NC_004084.1 + 53454 0.66 0.756304
Target:  5'- cGAUcUCCUCGuGGgUCGucgucuCCCGGCGGAc -3'
miRNA:   3'- -CUGcAGGAGC-UUgAGUu-----GGGUCGCCU- -5'
16489 3' -55 NC_004084.1 + 10856 0.66 0.756304
Target:  5'- aACGUCCUCGAACggCGucuCCUccacuGGcCGGAu -3'
miRNA:   3'- cUGCAGGAGCUUGa-GUu--GGG-----UC-GCCU- -5'
16489 3' -55 NC_004084.1 + 43880 0.66 0.756304
Target:  5'- aGCGUCUUCGA--UCGAUCUGGcCGGGa -3'
miRNA:   3'- cUGCAGGAGCUugAGUUGGGUC-GCCU- -5'
16489 3' -55 NC_004084.1 + 11413 0.66 0.756304
Target:  5'- cGACGUCCUCGAGg--AACUC-GCGGu -3'
miRNA:   3'- -CUGCAGGAGCUUgagUUGGGuCGCCu -5'
16489 3' -55 NC_004084.1 + 21621 0.66 0.745997
Target:  5'- gGACGaUCUUCGAcUUgGACCgcCAGCGGGg -3'
miRNA:   3'- -CUGC-AGGAGCUuGAgUUGG--GUCGCCU- -5'
16489 3' -55 NC_004084.1 + 40466 0.66 0.735576
Target:  5'- cGACGUCCacaucggccUCGAACgcgacgaccugaUCGACCUgcaGGUGGGa -3'
miRNA:   3'- -CUGCAGG---------AGCUUG------------AGUUGGG---UCGCCU- -5'
16489 3' -55 NC_004084.1 + 54084 0.66 0.732429
Target:  5'- cGGCGUCgguggagaacgCUcCGGACUCGACgacgcccgcgaucaCCGGCGGGa -3'
miRNA:   3'- -CUGCAG-----------GA-GCUUGAGUUG--------------GGUCGCCU- -5'
16489 3' -55 NC_004084.1 + 11932 0.67 0.708027
Target:  5'- cGACGUCgCgaccagCGAggACUCGAucgagcugacguacuUCCAGCGGAc -3'
miRNA:   3'- -CUGCAG-Ga-----GCU--UGAGUU---------------GGGUCGCCU- -5'
16489 3' -55 NC_004084.1 + 27155 0.67 0.703739
Target:  5'- cACGU--UCGAGCUCGACCgCGGUGaGAa -3'
miRNA:   3'- cUGCAggAGCUUGAGUUGG-GUCGC-CU- -5'
16489 3' -55 NC_004084.1 + 23688 0.67 0.697287
Target:  5'- --gGUCCgCGAGCUCAucgcgaaccggcgacGCCCGGaaaGGAc -3'
miRNA:   3'- cugCAGGaGCUUGAGU---------------UGGGUCg--CCU- -5'
16489 3' -55 NC_004084.1 + 22711 0.67 0.692974
Target:  5'- gGAuCGUCCcggCGAGCgacccgacgaagUCcGCCCAGCGGu -3'
miRNA:   3'- -CU-GCAGGa--GCUUG------------AGuUGGGUCGCCu -5'
16489 3' -55 NC_004084.1 + 41307 0.67 0.68215
Target:  5'- cGACGUCCUgGAGCg-GACCgGcgagcGCGGGu -3'
miRNA:   3'- -CUGCAGGAgCUUGagUUGGgU-----CGCCU- -5'
16489 3' -55 NC_004084.1 + 34830 0.67 0.68215
Target:  5'- cGCGUCCaucgCGAucuggcuCUCGACgaCAGCGGGg -3'
miRNA:   3'- cUGCAGGa---GCUu------GAGUUGg-GUCGCCU- -5'
16489 3' -55 NC_004084.1 + 9106 0.67 0.68215
Target:  5'- cGAUGUCgaCGAGCUCAcGCUCAGUGu- -3'
miRNA:   3'- -CUGCAGgaGCUUGAGU-UGGGUCGCcu -5'
16489 3' -55 NC_004084.1 + 44544 0.67 0.671279
Target:  5'- --gGUCCUCGGcuGCUgGugCCAGCGc- -3'
miRNA:   3'- cugCAGGAGCU--UGAgUugGGUCGCcu -5'
16489 3' -55 NC_004084.1 + 1500 0.67 0.671279
Target:  5'- aGACGUcgcCCUCGAGCUCGAagCCGaugcacucGCGGu -3'
miRNA:   3'- -CUGCA---GGAGCUUGAGUUg-GGU--------CGCCu -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.