miRNA display CGI


Results 1 - 20 of 30 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
2665 5' -66.1 NC_001491.2 + 1832 0.66 0.460671
Target:  5'- cGGCacagccucagGGGCGCAGAGuCCGGGUacagGCgCGc -3'
miRNA:   3'- uCCG----------CUCGCGUCUC-GGCCCG----CGgGCa -5'
2665 5' -66.1 NC_001491.2 + 1973 0.79 0.056586
Target:  5'- cAGGCGAccCGCGGAGUCaGGGCGCCCGc -3'
miRNA:   3'- -UCCGCUc-GCGUCUCGG-CCCGCGGGCa -5'
2665 5' -66.1 NC_001491.2 + 2533 0.66 0.44338
Target:  5'- aAGGUGAGCGcCGGGcGCCaGGC-CUCGg -3'
miRNA:   3'- -UCCGCUCGC-GUCU-CGGcCCGcGGGCa -5'
2665 5' -66.1 NC_001491.2 + 2852 0.7 0.238969
Target:  5'- gGGGCucgGAGCGCcGcuuGCCgcucuugccccugGGGCGCCCGUg -3'
miRNA:   3'- -UCCG---CUCGCGuCu--CGG-------------CCCGCGGGCA- -5'
2665 5' -66.1 NC_001491.2 + 2943 0.66 0.434872
Target:  5'- gAGGUGGGcCGgGGAGgCGGcCGCCUGa -3'
miRNA:   3'- -UCCGCUC-GCgUCUCgGCCcGCGGGCa -5'
2665 5' -66.1 NC_001491.2 + 4801 0.7 0.261029
Target:  5'- gGGaGCGGGCGCcgaagcuGGAGCCGGagcggguGCGCCgGg -3'
miRNA:   3'- -UC-CGCUCGCG-------UCUCGGCC-------CGCGGgCa -5'
2665 5' -66.1 NC_001491.2 + 5309 0.74 0.132475
Target:  5'- cGGCGAGCccCGGAGCCGGGCuggguGCCgGg -3'
miRNA:   3'- uCCGCUCGc-GUCUCGGCCCG-----CGGgCa -5'
2665 5' -66.1 NC_001491.2 + 5517 0.68 0.312773
Target:  5'- cAGGuCGGGCGCGGcgGGCUGGGUGaaCCCc- -3'
miRNA:   3'- -UCC-GCUCGCGUC--UCGGCCCGC--GGGca -5'
2665 5' -66.1 NC_001491.2 + 5755 0.7 0.245029
Target:  5'- cGGCGGGCGCucGGAcGaCGGGCGCCg-- -3'
miRNA:   3'- uCCGCUCGCG--UCU-CgGCCCGCGGgca -5'
2665 5' -66.1 NC_001491.2 + 8674 0.7 0.268143
Target:  5'- gGGGCGuucuGCGCcccGCCGuGGCGCCCc- -3'
miRNA:   3'- -UCCGCu---CGCGucuCGGC-CCGCGGGca -5'
2665 5' -66.1 NC_001491.2 + 9998 0.72 0.189922
Target:  5'- gGGGCGGGCGCGGA--CGGGCuauaCCCGa -3'
miRNA:   3'- -UCCGCUCGCGUCUcgGCCCGc---GGGCa -5'
2665 5' -66.1 NC_001491.2 + 10109 0.68 0.33855
Target:  5'- gAGGC-AGCggacgcgcuccggaGCGGcGCCGGGCcGCCCGc -3'
miRNA:   3'- -UCCGcUCG--------------CGUCuCGGCCCG-CGGGCa -5'
2665 5' -66.1 NC_001491.2 + 12483 0.68 0.340707
Target:  5'- cGGCGGGCgGCGGGcGCCcgcGGGUcCCCGg -3'
miRNA:   3'- uCCGCUCG-CGUCU-CGG---CCCGcGGGCa -5'
2665 5' -66.1 NC_001491.2 + 13585 0.67 0.369638
Target:  5'- aGGGCGAGCuaAGGgaguaagacugccGCCGGGCaggcaaugugcGCCCa- -3'
miRNA:   3'- -UCCGCUCGcgUCU-------------CGGCCCG-----------CGGGca -5'
2665 5' -66.1 NC_001491.2 + 22384 0.72 0.172747
Target:  5'- cGGGUGGGCGUucGGGCUGGGUGUuuGg -3'
miRNA:   3'- -UCCGCUCGCGu-CUCGGCCCGCGggCa -5'
2665 5' -66.1 NC_001491.2 + 28560 0.67 0.362814
Target:  5'- cGGCgGGGCGCAGAacGCCccuGGCcCCCGg -3'
miRNA:   3'- uCCG-CUCGCGUCU--CGGc--CCGcGGGCa -5'
2665 5' -66.1 NC_001491.2 + 35587 0.66 0.44338
Target:  5'- aGGGCGccGCGCAGAGCCaccGcGCGgCCa- -3'
miRNA:   3'- -UCCGCu-CGCGUCUCGGc--C-CGCgGGca -5'
2665 5' -66.1 NC_001491.2 + 35667 0.69 0.292986
Target:  5'- cGGCGcGGCGCuGGGGCCGuGGaGCCCu- -3'
miRNA:   3'- uCCGC-UCGCG-UCUCGGC-CCgCGGGca -5'
2665 5' -66.1 NC_001491.2 + 37231 0.66 0.44338
Target:  5'- gGGGUGAGaCGCgggcugggGGGGCCaggcucucucucGGGCgcggGCCCGUg -3'
miRNA:   3'- -UCCGCUC-GCG--------UCUCGG------------CCCG----CGGGCA- -5'
2665 5' -66.1 NC_001491.2 + 51736 0.66 0.44338
Target:  5'- aAGGCGAGCuuaAGGGUgGGGUguugGCCaCGUg -3'
miRNA:   3'- -UCCGCUCGcg-UCUCGgCCCG----CGG-GCA- -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.