miRNA display CGI


Results 1 - 20 of 36 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
23104 3' -59.5 NC_005178.1 + 1810 0.69 0.251309
Target:  5'- cGCGGACaCUGCGCaggACaagGCGcACGUCCu -3'
miRNA:   3'- -UGUCUG-GGCGCGga-UGg--CGC-UGCAGG- -5'
23104 3' -59.5 NC_005178.1 + 2380 0.66 0.416582
Target:  5'- uGCGG-CCUG-GCCgACaGUGACGUCCu -3'
miRNA:   3'- -UGUCuGGGCgCGGaUGgCGCUGCAGG- -5'
23104 3' -59.5 NC_005178.1 + 4042 0.7 0.243085
Target:  5'- -aAGAacuCCCGCGCCUGCCggugGCaguagcccugucgaGugGUCCa -3'
miRNA:   3'- ugUCU---GGGCGCGGAUGG----CG--------------CugCAGG- -5'
23104 3' -59.5 NC_005178.1 + 5440 0.69 0.278053
Target:  5'- aGCAGAugugggaaguaaUCCGgGCCaACCGCGAagaGUUCa -3'
miRNA:   3'- -UGUCU------------GGGCgCGGaUGGCGCUg--CAGG- -5'
23104 3' -59.5 NC_005178.1 + 5540 0.67 0.354686
Target:  5'- cGCcuGCCUGCGCCUggGCgGCuACGUCg -3'
miRNA:   3'- -UGucUGGGCGCGGA--UGgCGcUGCAGg -5'
23104 3' -59.5 NC_005178.1 + 6554 0.7 0.244963
Target:  5'- aGCAGGCCCuuGCCU-CCGUGcgcaGCGaUCCu -3'
miRNA:   3'- -UGUCUGGGcgCGGAuGGCGC----UGC-AGG- -5'
23104 3' -59.5 NC_005178.1 + 8660 0.71 0.193685
Target:  5'- gUAGGCCUGC-CCaGCCGCGACcagGUCUg -3'
miRNA:   3'- uGUCUGGGCGcGGaUGGCGCUG---CAGG- -5'
23104 3' -59.5 NC_005178.1 + 9518 0.67 0.363122
Target:  5'- gACAGACCgccagCGcCGCCUGgCGCGggaACG-CCa -3'
miRNA:   3'- -UGUCUGG-----GC-GCGGAUgGCGC---UGCaGG- -5'
23104 3' -59.5 NC_005178.1 + 9602 0.68 0.292255
Target:  5'- aACAG-UUCGUagGUCUGgcCCGCGACGUCCc -3'
miRNA:   3'- -UGUCuGGGCG--CGGAU--GGCGCUGCAGG- -5'
23104 3' -59.5 NC_005178.1 + 10734 0.66 0.39823
Target:  5'- gACAGcCCCGCugGCC-ACaGCG-CGUCCc -3'
miRNA:   3'- -UGUCuGGGCG--CGGaUGgCGCuGCAGG- -5'
23104 3' -59.5 NC_005178.1 + 12145 1.1 0.000211
Target:  5'- cACAGACCCGCGCCUACCGCGACGUCCu -3'
miRNA:   3'- -UGUCUGGGCGCGGAUGGCGCUGCAGG- -5'
23104 3' -59.5 NC_005178.1 + 12302 0.68 0.307018
Target:  5'- uGguGAUCgCGCuGCCUGCCGCuuuccugcuGGCGUCa -3'
miRNA:   3'- -UguCUGG-GCG-CGGAUGGCG---------CUGCAGg -5'
23104 3' -59.5 NC_005178.1 + 12673 0.67 0.338234
Target:  5'- gGCGGguggccugguuGCCUGCgGCCUGCuCGCGGCG-Cg -3'
miRNA:   3'- -UGUC-----------UGGGCG-CGGAUG-GCGCUGCaGg -5'
23104 3' -59.5 NC_005178.1 + 12754 0.68 0.292255
Target:  5'- -aGGAaaCCCGCGacgcCCUgcGCCGCGccuACGUCCu -3'
miRNA:   3'- ugUCU--GGGCGC----GGA--UGGCGC---UGCAGG- -5'
23104 3' -59.5 NC_005178.1 + 14086 0.66 0.415652
Target:  5'- aGCGGGCCggcuuCGCGCCgggcgcccugGCCGUcgcccugGGCGUCg -3'
miRNA:   3'- -UGUCUGG-----GCGCGGa---------UGGCG-------CUGCAGg -5'
23104 3' -59.5 NC_005178.1 + 15069 0.68 0.330219
Target:  5'- gACGGcucACCCuCGCC-GCCGaCGuCGUCCg -3'
miRNA:   3'- -UGUC---UGGGcGCGGaUGGC-GCuGCAGG- -5'
23104 3' -59.5 NC_005178.1 + 17840 0.72 0.178323
Target:  5'- aGCGcACCCugggaGCGCCUGCCGCccucggcGAgGUCCa -3'
miRNA:   3'- -UGUcUGGG-----CGCGGAUGGCG-------CUgCAGG- -5'
23104 3' -59.5 NC_005178.1 + 18186 0.68 0.322344
Target:  5'- aGCAG-CCCGCGCaggUAgCGCGG-GUCUg -3'
miRNA:   3'- -UGUCuGGGCGCGg--AUgGCGCUgCAGG- -5'
23104 3' -59.5 NC_005178.1 + 18568 0.7 0.23875
Target:  5'- cACA-ACCCGCGCCgACCGUGACc--- -3'
miRNA:   3'- -UGUcUGGGCGCGGaUGGCGCUGcagg -5'
23104 3' -59.5 NC_005178.1 + 19361 0.7 0.23875
Target:  5'- cCAGACCCGCG-CUACCuGCG-CGggCUg -3'
miRNA:   3'- uGUCUGGGCGCgGAUGG-CGCuGCa-GG- -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.