miRNA display CGI


Results 1 - 20 of 44 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
12456 5' -62.4 NC_003324.1 + 39488 0.66 0.363983
Target:  5'- uUCGCCUucaacUCGUCGGCAGagaaCC-CGGCc-- -3'
miRNA:   3'- -AGCGGA-----AGCGGCCGUC----GGaGCCGcua -5'
12456 5' -62.4 NC_003324.1 + 50681 0.67 0.280998
Target:  5'- gCGCCaaucUUCGaCGGUGacccccGCCUCGGCGGUa -3'
miRNA:   3'- aGCGG----AAGCgGCCGU------CGGAGCCGCUA- -5'
12456 5' -62.4 NC_003324.1 + 21832 0.67 0.283735
Target:  5'- cCGCCUucugcaucaguUCGCgcagccgggccuccuCGGCGGCCUUGGCc-- -3'
miRNA:   3'- aGCGGA-----------AGCG---------------GCCGUCGGAGCCGcua -5'
12456 5' -62.4 NC_003324.1 + 31776 0.67 0.299164
Target:  5'- aCGCCU--GCCGGCcucuucgGGCCcguauucggcaacgUCGGCGAg -3'
miRNA:   3'- aGCGGAagCGGCCG-------UCGG--------------AGCCGCUa -5'
12456 5' -62.4 NC_003324.1 + 24853 0.67 0.302039
Target:  5'- cCGUCUuggcaaucugcUCGCgGGCGGCCUCGuuGGa -3'
miRNA:   3'- aGCGGA-----------AGCGgCCGUCGGAGCcgCUa -5'
12456 5' -62.4 NC_003324.1 + 13089 0.66 0.331951
Target:  5'- cCGCCgacCGCCGccgacGCAGCCUCGcUGAc -3'
miRNA:   3'- aGCGGaa-GCGGC-----CGUCGGAGCcGCUa -5'
12456 5' -62.4 NC_003324.1 + 44673 0.66 0.347703
Target:  5'- gCGCaCUUCGUCgaucgugguguuGGCAGCCUCGacGUGGg -3'
miRNA:   3'- aGCG-GAAGCGG------------CCGUCGGAGC--CGCUa -5'
12456 5' -62.4 NC_003324.1 + 18287 0.66 0.355778
Target:  5'- -gGCCgacgCGCgGGCaaucgcugccccGGCCUUGGUGAg -3'
miRNA:   3'- agCGGaa--GCGgCCG------------UCGGAGCCGCUa -5'
12456 5' -62.4 NC_003324.1 + 40410 0.66 0.355778
Target:  5'- uUCGCCUUCGuCUGGC-GCUUCGuCGu- -3'
miRNA:   3'- -AGCGGAAGC-GGCCGuCGGAGCcGCua -5'
12456 5' -62.4 NC_003324.1 + 26148 0.68 0.267628
Target:  5'- cUCGUCccgcUGCUGGCGGCCugcaucauucugUCGGCGGUc -3'
miRNA:   3'- -AGCGGaa--GCGGCCGUCGG------------AGCCGCUA- -5'
12456 5' -62.4 NC_003324.1 + 14445 0.68 0.267628
Target:  5'- gCGCCcaUGCCGGCguccaAGCaUCGGCGGa -3'
miRNA:   3'- aGCGGaaGCGGCCG-----UCGgAGCCGCUa -5'
12456 5' -62.4 NC_003324.1 + 36804 0.68 0.248542
Target:  5'- aUUGCCUcgUCGCCGuaGGCaUCGaGCGAUa -3'
miRNA:   3'- -AGCGGA--AGCGGCcgUCGgAGC-CGCUA- -5'
12456 5' -62.4 NC_003324.1 + 25568 0.78 0.04697
Target:  5'- cCGCCUUCGCCGaGauuGuCCUCGGCGGUg -3'
miRNA:   3'- aGCGGAAGCGGC-Cgu-C-GGAGCCGCUA- -5'
12456 5' -62.4 NC_003324.1 + 20173 0.74 0.099239
Target:  5'- aCGCU---GCCGGCAGCCUCGGUcaGAg -3'
miRNA:   3'- aGCGGaagCGGCCGUCGGAGCCG--CUa -5'
12456 5' -62.4 NC_003324.1 + 42564 0.73 0.122255
Target:  5'- cUUGCCgcaaugaccgUGCCGGCAGCCUCGcuguaggccgugacGCGAUa -3'
miRNA:   3'- -AGCGGaa--------GCGGCCGUCGGAGC--------------CGCUA- -5'
12456 5' -62.4 NC_003324.1 + 43397 0.72 0.135724
Target:  5'- cCGCCgaucugaccgcagUCGUgGGUGGUCUCGGCGAc -3'
miRNA:   3'- aGCGGa------------AGCGgCCGUCGGAGCCGCUa -5'
12456 5' -62.4 NC_003324.1 + 17424 0.7 0.183234
Target:  5'- gUCGCCcUCGUCGGUcaugacgcggAGCC-CGGUGAa -3'
miRNA:   3'- -AGCGGaAGCGGCCG----------UCGGaGCCGCUa -5'
12456 5' -62.4 NC_003324.1 + 29372 0.69 0.236454
Target:  5'- cUUGCCcUCGUCGGUgacgacaacGGCCUCGGUa-- -3'
miRNA:   3'- -AGCGGaAGCGGCCG---------UCGGAGCCGcua -5'
12456 5' -62.4 NC_003324.1 + 23777 0.68 0.242435
Target:  5'- cCGa-UUCGgCGGCgcguucGGCCUCGGCGAg -3'
miRNA:   3'- aGCggAAGCgGCCG------UCGGAGCCGCUa -5'
12456 5' -62.4 NC_003324.1 + 23159 0.68 0.248542
Target:  5'- aCGUCUU-GCCGGC-GCCcacgguauggUCGGCGAg -3'
miRNA:   3'- aGCGGAAgCGGCCGuCGG----------AGCCGCUa -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.