miRNA display CGI


Results 1 - 20 of 23 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
23110 5' -52.7 NC_005178.1 + 4062 0.66 0.769389
Target:  5'- cGCGAgCUGGAGGaauuccACGGCGAccaGGugGcCg -3'
miRNA:   3'- -UGCUgGACCUCU------UGCUGCU---CUugCaG- -5'
23110 5' -52.7 NC_005178.1 + 19029 0.66 0.758805
Target:  5'- gUGACCUGGAGAAU--CGGGuGCG-Cg -3'
miRNA:   3'- uGCUGGACCUCUUGcuGCUCuUGCaG- -5'
23110 5' -52.7 NC_005178.1 + 21121 0.66 0.758805
Target:  5'- aACG-CCuucaagUGGGcGAACGACGGcAGCGUCa -3'
miRNA:   3'- -UGCuGG------ACCU-CUUGCUGCUcUUGCAG- -5'
23110 5' -52.7 NC_005178.1 + 23338 0.66 0.758805
Target:  5'- --uACCUGG---GCGACGAGAucggcaccgggGCGUCg -3'
miRNA:   3'- ugcUGGACCucuUGCUGCUCU-----------UGCAG- -5'
23110 5' -52.7 NC_005178.1 + 24761 0.66 0.745921
Target:  5'- cGCGACCUccaGGgacugccggucgaGGAcguaggcGCGGCGcAGGGCGUCg -3'
miRNA:   3'- -UGCUGGA---CC-------------UCU-------UGCUGC-UCUUGCAG- -5'
23110 5' -52.7 NC_005178.1 + 28946 0.66 0.737231
Target:  5'- uUGGCC-GGAGAcuucCGGCGAGcGCGUg -3'
miRNA:   3'- uGCUGGaCCUCUu---GCUGCUCuUGCAg -5'
23110 5' -52.7 NC_005178.1 + 19431 0.67 0.726267
Target:  5'- uCGGCCUcGGuGAcagggugauGCGcuauuaccugaGCGAGGACGUCa -3'
miRNA:   3'- uGCUGGA-CCuCU---------UGC-----------UGCUCUUGCAG- -5'
23110 5' -52.7 NC_005178.1 + 15680 0.67 0.715201
Target:  5'- cCGACCaGGAGcacguugggggaGACGuugaGGGAACGUCc -3'
miRNA:   3'- uGCUGGaCCUC------------UUGCug--CUCUUGCAG- -5'
23110 5' -52.7 NC_005178.1 + 26070 0.67 0.681525
Target:  5'- gACGGCCUGGAcgacaucgcccGAGgGGCG-GAcgcugccgcaGCGUCg -3'
miRNA:   3'- -UGCUGGACCU-----------CUUgCUGCuCU----------UGCAG- -5'
23110 5' -52.7 NC_005178.1 + 19099 0.67 0.678126
Target:  5'- uGCGGaCUGGcuGGACGAUGAGGcucgcuccgccgaaGCGUCg -3'
miRNA:   3'- -UGCUgGACCu-CUUGCUGCUCU--------------UGCAG- -5'
23110 5' -52.7 NC_005178.1 + 17275 0.68 0.658799
Target:  5'- cCGAuCCUGGAGGccaaagGCuGGUGGGGGCGUCa -3'
miRNA:   3'- uGCU-GGACCUCU------UG-CUGCUCUUGCAG- -5'
23110 5' -52.7 NC_005178.1 + 23701 0.69 0.613119
Target:  5'- cCGGCaagccggUGGcgcAGGGCGACGAGAucgACGUCa -3'
miRNA:   3'- uGCUGg------ACC---UCUUGCUGCUCU---UGCAG- -5'
23110 5' -52.7 NC_005178.1 + 20442 0.69 0.601717
Target:  5'- uCGGCCUGGcccAgGACGcGGACGUCg -3'
miRNA:   3'- uGCUGGACCucuUgCUGCuCUUGCAG- -5'
23110 5' -52.7 NC_005178.1 + 31522 0.7 0.556484
Target:  5'- gGCGGUCUGGcGAugcugcGCGGCGAGGACGcCu -3'
miRNA:   3'- -UGCUGGACCuCU------UGCUGCUCUUGCaG- -5'
23110 5' -52.7 NC_005178.1 + 29234 0.71 0.490725
Target:  5'- aGCGACCUGGAaAGCGGCGc---UGUCg -3'
miRNA:   3'- -UGCUGGACCUcUUGCUGCucuuGCAG- -5'
23110 5' -52.7 NC_005178.1 + 10466 0.71 0.45921
Target:  5'- cGCGAUCUGGAGAuCGuCGAGcGCuUCg -3'
miRNA:   3'- -UGCUGGACCUCUuGCuGCUCuUGcAG- -5'
23110 5' -52.7 NC_005178.1 + 421 0.72 0.428804
Target:  5'- gGCGuagcuCCUGGAccuCGGCGAGGAgGUCg -3'
miRNA:   3'- -UGCu----GGACCUcuuGCUGCUCUUgCAG- -5'
23110 5' -52.7 NC_005178.1 + 32566 0.72 0.399619
Target:  5'- uCGACCUGGccAGCGGCGAccaGGugGUCc -3'
miRNA:   3'- uGCUGGACCucUUGCUGCU---CUugCAG- -5'
23110 5' -52.7 NC_005178.1 + 22789 0.74 0.320062
Target:  5'- cCGACCUGGucGAgcaguACGGCGAG-GCGUCc -3'
miRNA:   3'- uGCUGGACCu-CU-----UGCUGCUCuUGCAG- -5'
23110 5' -52.7 NC_005178.1 + 9322 0.77 0.203468
Target:  5'- aGCGGCCUGGAuAGCGGCGgcgccgcucaGGAGCGUg -3'
miRNA:   3'- -UGCUGGACCUcUUGCUGC----------UCUUGCAg -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.